Publications

Miller PG, Qiao D, Rojas-Quintero J, ..., Ebert BL, COPDGene Study Investigators, National Heart, Lung, and Blood Institute Trans-Omics for Precision Medicine Consortium

Blood 139 (3) 357-368 [2022-01-20; online 2021-12-03]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

CCT3-LINC00326 axis regulates hepatocarcinogenic lipid metabolism.

Søndergaard JN, Sommerauer C, Atanasoai I, ..., Barragan I, Kutter C

Gut 71 (10) 2081-2092 [2022-01-12; online 2022-01-12]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Functional dissection of inherited non-coding variation influencing multiple myeloma risk.

Ajore R, Niroula A, Pertesi M, ..., Houlston R, Nilsson B

Nat Commun 13 (1) 151 [2022-01-10; online 2022-01-10]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

A bispecific monomeric nanobody induces spike trimer dimers and neutralizes SARS-CoV-2 in vivo.

Hanke L, Das H, Sheward DJ, ..., Murrell B, McInerney GM

Nat Commun 13 (1) 155 [2022-01-10; online 2022-01-10]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

MirGeneDB 2.1: toward a complete sampling of all major animal phyla.

Fromm B, Høye E, Domanska D, ..., Friedländer MR, Peterson KJ

Nucleic Acids Res. 50 (D1) D204-D210 [2022-01-07; online 2021-12-02]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

TRP channels: branching out into the fungal kingdom.

Hellmich UA, Delemotte L

Structure 30 (1) 2-4 [2022-01-06; online 2022-01-08]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

A Genomic Perspective Across Earth's Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy.

Rodríguez-Gijón A, Nuy JK, Mehrshad M, ..., Woyke T, Garcia SL

Front Microbiol 12 (-) 761869 [2022-01-05; online 2022-01-05]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

Effects on weight loss and glycemic control with SAR441255, a potent unimolecular peptide GLP-1/GIP/GCG receptor triagonist.

Bossart M, Wagner M, Elvert R, ..., Nitsche A, Konkar A

Cell Metab. 34 (1) 59-74.e10 [2022-01-04; online 2021-12-20]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

An open state of a voltage-gated sodium channel involving a π-helix and conserved pore-facing asparagine.

Choudhury K, Kasimova MA, McComas S, Howard RJ, Delemotte L

Biophys. J. 121 (1) 11-22 [2022-01-04; online 2021-12-08]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Spatial analysis of histology in 3D: quantification and visualization of organ and tumor level tissue environment.

Ruusuvuori P, Valkonen M, Kartasalo K, ..., Nykter M, Latonen L

Heliyon 8 (1) e08762 [2022-01-00; online 2022-01-14]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Revisiting sORFs: overcoming challenges to identify and characterize functional microproteins.

Schlesinger D, Elsässer SJ

FEBS J. 289 (1) 53-74 [2022-01-00; online 2021-02-24]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Putative regulation of macrophage-mediated inflammation by catestatin.

Muntjewerff EM, Christoffersson G, Mahata SK, van den Bogaart G

Trends Immunol. 43 (1) 41-50 [2022-01-00; online 2021-11-27]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Improvement of the performance of anticancer peptides using a drug repositioning pipeline.

Mohammadi E, Tahmoorespur M, Benfeitas R, ..., Mardinoglu A, Sekhavati MH

Biotechnol J 17 (1) e2100417 [2022-01-00; online 2021-11-14]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Identification of dynamic mass-action biochemical reaction networks using sparse Bayesian methods.

Jiang R, Singh P, Wrede F, Hellander A, Petzold L

PLoS Comput Biol 18 (1) e1009830 [2022-01-00; online 2022-01-31]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Distinct transcription kinetics of pluripotent cell states.

Shao R, Kumar B, Lidschreiber K, ..., Cramer P, Elsässer SJ

Mol Syst Biol 18 (1) e10407 [2022-01-00; online 2022-01-13]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Cell type-specific analysis by single-cell profiling identifies a stable mammalian tRNA-mRNA interface and increased translation efficiency in neurons.

Gao W, Gallardo-Dodd CJ, Kutter C

Genome Res 32 (1) 97-110 [2022-01-00; online 2021-12-02]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Artificial intelligence for diagnosis and Gleason grading of prostate cancer: the PANDA challenge.

Bulten W, Kartasalo K, Chen PC, ..., Eklund M, PANDA challenge consortium

Nat. Med. 28 (1) 154-163 [2022-01-00; online 2022-01-13]

DDLS Fellow Kimmo Kartasalo

DOI Crossref

Enhanced Sampling Methods for Molecular Dynamics Simulations [Article v1.0]

Hénin J, Lelièvre T, Shirts MR, Valsson O, Delemotte L

LiveCoMS 4 (1) - [2022-00-00; online 2022-00-00]

Lucie Delemotte SciLifeLab Fellow

DOI Crossref

Cholesterol stiffening of lipid membranes and drug interactions: Insights from neutron spin echo and deuterium NMR spectroscopy

Gupta S, Doole FT, Kumarage T, ..., Ashkar R, Brown MF

- - (-) 771-796 [2022-00-00; online 2022-00-00]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Therapeutic Potential of Ferulic Acid in Alzheimer's Disease.

Turkez H, Arslan ME, Barboza JN, ..., de Sousa DP, Mardinoğlu A

Curr Drug Deliv 19 (8) 860-873 [2021-12-30; online 2021-12-30]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Potential of [11C]UCB-J as a PET tracer for islets of Langerhans.

Puuvuori E, Rokka J, Carlsson PO, ..., Eriksson J, Eriksson O

Sci Rep 11 (1) 24466 [2021-12-28; online 2021-12-28]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Regional Brain Analysis of Modified Amino Acids and Dipeptides during the Sleep/Wake Cycle.

Vallianatou T, Bèchet NB, Correia MSP, Lundgaard I, Globisch D

Metabolites 12 (1) - [2021-12-27; online 2021-12-27]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Accurate spliced alignment of long RNA sequencing reads

Sahlin K, Mäkinen V

Bioinformatics 37 (24) 4643-4651 [2021-12-11; online 2021-07-24]

Kristoffer Sahlin SciLifeLab Fellow

PubMed DOI Crossref

Systems Biology Approaches to Decipher the Underlying Molecular Mechanisms of Glioblastoma Multiforme.

Kaynar A, Altay O, Li X, ..., Shoaie S, Mardinoglu A

Int J Mol Sci 22 (24) 13213 [2021-12-08; online 2021-12-08]

Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

Long-term STED imaging of membrane packing and dynamics by exchangeable polarity-sensitive dyes.

Carravilla P, Dasgupta A, Zhurgenbayeva G, ..., Sezgin E, Eggeling C

Biophys Rep (N Y) 1 (2) None [2021-12-08; online 2021-12-08]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Genomic Signatures of Sexual Selection on Pollen-Expressed Genes in Arabis alpina.

Gutiérrez-Valencia J, Fracassetti M, Horvath R, ..., Kolář F, Slotte T

Mol. Biol. Evol. - (-) - [2021-12-08; online 2021-12-08] Open Access

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

What Is the Role of the Environment in the Emergence of Novel Antibiotic Resistance Genes? A Modeling Approach.

Bengtsson-Palme J, Jonsson V, Heß S

Environ. Sci. Technol. 55 (23) 15734-15743 [2021-12-07; online 2021-11-18]

DDLS Fellow Johan Bengtsson-Palme

DOI Crossref

Proactive autoscaling for edge computing systems with kubernetes

Ju L, Singh P, Toor S

- - (-) - [2021-12-06; online 2022-02-07]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Dnmt3a-mutated clonal hematopoiesis promotes osteoporosis.

Kim PG, Niroula A, Shkolnik V, ..., Natarajan P, Ebert BL

J. Exp. Med. 218 (12) - [2021-12-06; online 2021-10-26]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

The Current State of Beta-Cell-Mass PET Imaging for Diabetes Research and Therapies.

Cheung P, Eriksson O

Biomedicines 9 (12) - [2021-12-03; online 2021-12-03]

Olof Eriksson SciLifeLab Fellow

DOI Crossref

Smart3-ATAC: a highly sensitive method for joint accessibility and full-length transcriptome analysis in single cells

Cheng H, Pui Hp, Lentini A, ..., Deng Q, Enge M

- - (-) - [2021-12-03; online 2021-12-03]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Salmonella effector driven invasion of the gut epithelium: breaking in and setting the house on fire.

Fattinger SA, Sellin ME, Hardt WD

Curr Opin Microbiol 64 (-) 9-18 [2021-12-00; online 2021-09-06]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Next generation plasma proteome profiling of COVID-19 patients with mild to moderate symptoms.

Zhong W, Altay O, Arif M, ..., Uhlen M, Fagerberg L

EBioMedicine 74 (-) 103723 [2021-12-00; online 2021-11-27]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

In vitro transcriptome response to propolis in differentiated SH-SY5Y neurons.

Turkez H, Arslan ME, Yilmaz A, ..., Abd El-Aty AM, Mardinoglu A

J Food Biochem 45 (12) e13990 [2021-12-00; online 2021-11-03]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

A bioinformatic platform to integrate target capture and whole genome sequences of various read depths for phylogenomics.

G Ribeiro P, Torres Jiménez MF, Andermann T, ..., Bacon CD, Matos-Maraví P

Mol. Ecol. 30 (23) 6021-6035 [2021-12-00; online 2021-10-31]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Safety in multi-assembly via paths appearing in all path covers of a DAG.

Caceres M, Mumey B, Husic E, ..., Sahlin K, Tomescu AII

IEEE/ACM Trans Comput Biol Bioinform PP (-) - [2021-11-30; online 2021-11-30]

Kristoffer Sahlin SciLifeLab Fellow

DOI Crossref

Genomic and niche divergence in an Amazonian palm species complex

Bacon CD, Roncal J, Andermann T, ..., Tunarosa N, Antonelli A

- 197 (4) 498-512 [2021-11-29; online 2021-05-10]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Fragment-based design of selective GPCR ligands guided by free energy simulations.

Matricon P, Vo DD, Gao ZG, ..., Jacobson KA, Carlsson J

Chem. Commun. (Camb.) 57 (92) 12305-12308 [2021-11-19; online 2021-11-19]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

A network-based approach reveals the dysregulated transcriptional regulation in non-alcoholic fatty liver disease.

Yang H, Arif M, Yuan M, ..., Zhang C, Mardinoglu A

iScience 24 (11) 103222 [2021-11-19; online 2021-10-05]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Single cell genomics reveals plastid-lacking Picozoa are close relatives of red algae.

Schön ME, Zlatogursky VV, Singh RP, ..., Wideman JG, Burki F

Nat Commun 12 (1) 6651 [2021-11-17; online 2021-11-17]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Boron-based hybrids as novel scaffolds for the development of drugs with neuroprotective properties.

Cacciatore I, Turkez H, Di Rienzo A, ..., Mardinoglu A, Di Stefano A

RSC Med Chem 12 (11) 1944-1949 [2021-11-17; online 2021-08-13]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Using High-Sensitivity Lipidomics To Assess Microscale Heterogeneity in Oceanic Sinking Particles and Single Phytoplankton Cells.

Hunter JE, Fredricks HF, Behrendt L, ..., Stocker R, Van Mooy BAS

Environ. Sci. Technol. 55 (22) 15456-15465 [2021-11-16; online 2021-11-01]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

MapToCleave: High-throughput profiling of microRNA biogenesis in living cells.

Kang W, Fromm B, Houben AJ, ..., Biryukova I, Friedländer MR

Cell Reports 37 (7) 110015 [2021-11-16; online 2021-11-18]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Engineered Human Induced Pluripotent Cells Enable Genetic Code Expansion in Brain Organoids.

van Husen LS, Katsori AM, Meineke B, ..., Schedin-Weiss S, Elsässer SJ

Chembiochem 22 (22) 3208-3213 [2021-11-16; online 2021-09-13]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Allosteric Effect of Nanobody Binding on Ligand-Specific Active States of the β2 Adrenergic Receptor.

Chen Y, Fleetwood O, Pérez-Conesa S, Delemotte L

J Chem Inf Model - (-) - [2021-11-15; online 2021-11-15]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Glucosylceramide synthase deficiency in the heart compromises β1-adrenergic receptor trafficking.

Andersson L, Cinato M, Mardani I, ..., Borén J, Levin MC

Eur. Heart J. 42 (43) 4481-4492 [2021-11-14; online 2021-07-24]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

A Genetically Encoded Picolyl Azide for Improved Live Cell Copper Click Labeling.

Meineke B, Heimgärtner J, Craig AJ, ..., Moodie LWK, Elsässer SJ

Front Chem 9 (-) 768535 [2021-11-11; online 2021-11-11]

SciLifeLab Fellow Simon Elsässer

DOI Crossref

Large-scale identification of RBP-RNA interactions by RAPseq refines essentials of post-transcriptional gene regulation

Atanasoai I, Papavasileiou S, Preiß N, Kutter C

- - (-) - [2021-11-09; online 2021-11-09]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

OpenPhi: an interface to access Philips iSyntax whole slide images for computational pathology.

Mulliqi N, Kartasalo K, Olsson H, ..., Eklund M, Ruusuvuori P

Bioinformatics 37 (21) 3995-3997 [2021-11-05; online 2021-08-07]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Vesicle Viewer: Online visualization and analysis of small-angle scattering from lipid vesicles.

Lewis-Laurent A, Doktorova M, Heberle FA, Marquardt D

Biophys. J. 120 (21) 4639-4648 [2021-11-02; online 2021-09-24]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Intercrypt sentinel macrophages tune antibacterial NF-κB responses in gut epithelial cells via TNF.

Hausmann A, Felmy B, Kunz L, ..., Sellin ME, Hardt WD

J. Exp. Med. 218 (11) - [2021-11-01; online 2021-09-16]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Improving sampling of crystallographic disorder in ensemble refinement.

Ploscariu N, Burnley T, Gros P, Pearce NM

Acta Crystallogr D Struct Biol 77 (Pt 11) 1357-1364 [2021-11-01; online 2021-10-20]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Safety and Efficacy Assessments to Take Antioxidants in Glioblastoma Therapy: From In Vitro Experiences to Animal and Clinical Studies.

Turkez H, Tozlu OO, Arslan ME, Mardinoglu A

Neurochem Int 150 (-) 105168 [2021-11-00; online 2021-08-25]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Effective sequence similarity detection with strobemers

Sahlin K

Genome Res. 31 (11) 2080-2094 [2021-11-00; online 2021-10-19]

Kristoffer Sahlin SciLifeLab Fellow

PubMed DOI Crossref

Distinction of lymphoid and myeloid clonal hematopoiesis.

Niroula A, Sekar A, Murakami MA, ..., Natarajan P, Ebert BL

Nat. Med. 27 (11) 1921-1927 [2021-11-00; online 2021-10-18]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Deep learning and alignment of spatially resolved single-cell transcriptomes with Tangram.

Biancalani T, Scalia G, Buffoni L, ..., Macosko EZ, Regev A

Nat. Methods 18 (11) 1352-1362 [2021-11-00; online 2021-10-28]

Sanja Vickovic SciLifeLab Fellow

DOI Crossref

Comprehensive analysis of chemical and biological problems associated with browning agents used in aquatic studies

Scharnweber K, Peura S, Attermeyer K, ..., Tranvik LJ, Székely AJ

Limnol Oceanogr Methods - (-) - [2021-10-28; online 2021-10-28]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

Revealing the Molecular Mechanisms of Alzheimer's Disease Based on Network Analysis.

Bayraktar A, Lam S, Altay O, ..., Shoaie S, Mardinoglu A

Int J Mol Sci 22 (21) 11556 [2021-10-26; online 2021-10-26]

Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

The Lon protease temporally restricts polar cell differentiation events during the Caulobacter cell cycle.

Omnus DJ, Fink MJ, Szwedo K, Jonas K

Elife 10 (-) - [2021-10-25; online 2021-10-25]

Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

Virtual reality for 3D histology: multi-scale visualization of organs with interactive feature exploration.

Liimatainen K, Latonen L, Valkonen M, Kartasalo K, Ruusuvuori P

BMC Cancer 21 (1) 1133 [2021-10-22; online 2021-10-22]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Monitoring the Microevolution of Salmonella enterica in Healthy Dairy Cattle Populations at the Individual Farm Level Using Whole-Genome Sequencing.

Carroll LM, Buehler AJ, Gaballa A, ..., Cheng RA, Wiedmann M

Front Microbiol 12 (-) 763669 [2021-10-18; online 2021-10-18]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Chemoselective and Highly Sensitive Quantification of Gut Microbiome and Human Metabolites.

Lin W, Conway LP, Vujasinovic M, Löhr JM, Globisch D

Angew. Chem. Int. Ed. Engl. 60 (43) 23232-23240 [2021-10-18; online 2021-09-17]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Recent Evolution and Genomic Profile of Salmonella enterica Serovar Heidelberg Isolates from Poultry Flocks in Brazil.

Kipper D, Orsi RH, Carroll LM, ..., Wiedmann M, Lunge VR

Applied and environmental microbiology 87 (21) e0103621 [2021-10-14; online 2021-08-18]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Herpes Simplex Virus 1 and 2 Infections during Differentiation of Human Cortical Neurons.

Bergström P, Trybala E, Eriksson CE, ..., Zetterberg H, Bergström T

Viruses 13 (10) - [2021-10-14; online 2021-10-14]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

The Assessment of Selected miRNA Profile in Familial Mediterranean Fever.

Kahraman CY, Egin ME, Tatar A, Turkez H, Mardinoglu A

Biomed Res Int 2021 (-) 6495700 [2021-10-13; online 2021-10-13]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Characterization of Basal Transcriptomes Identifies Potential Metabolic and Virulence-Associated Adaptations Among Diverse Nontyphoidal Salmonella enterica Serovars.

Cohn AR, Orsi RH, Carroll LM, ..., Wiedmann M, Cheng RA

Front Microbiol 12 (-) 730411 [2021-10-13; online 2021-10-13]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Diversity and ecology of protists revealed by metabarcoding.

Burki F, Sandin MM, Jamy M

Curr. Biol. 31 (19) R1267-R1280 [2021-10-11; online 2021-10-13]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Combined Metabolic Activators Decrease Liver Steatosis by Activating Mitochondrial Metabolism in Hamsters Fed with a High-Fat Diet.

Yang H, Mayneris-Perxachs J, Boqué N, ..., Mardinoglu A, Caimari A

Biomedicines 9 (10) - [2021-10-11; online 2021-10-11]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Squaric acid as a new chemoselective moiety for mass spectrometry-based metabolomics analysis of amines.

Lin W, Yang Z, Kaur A, ..., Löhr JM, Globisch D

RSC Chem Biol 2 (5) 1479-1483 [2021-10-07; online 2021-08-12]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Genomic Characterization of Endemic and Ecdemic Non-typhoidal Salmonella enterica Lineages Circulating Among Animals and Animal Products in South Africa.

Carroll LM, Pierneef R, Mathole M, Matle I

Front Microbiol 12 (-) 748611 [2021-10-04; online 2021-10-04]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Predicting Molecular Phenotypes from Histopathology Images: A Transcriptome-Wide Expression-Morphology Analysis in Breast Cancer.

Wang Y, Kartasalo K, Weitz P, ..., Hartman J, Rantalainen M

Cancer Res. 81 (19) 5115-5126 [2021-10-01; online 2021-08-02]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Differential susceptibility of rat primary neurons and neural stem cells to PFOS and PFOA toxicity.

Pierozan P, Karlsson O

Toxicol. Lett. 349 (-) 61-68 [2021-10-01; online 2021-06-11]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Structure-Based Virtual Screening for Ligands of G Protein-Coupled Receptors: What Can Molecular Docking Do for You?

Ballante F, Kooistra AJ, Kampen S, de Graaf C, Carlsson J

Pharmacol Rev 73 (4) 527-565 [2021-10-00; online 2021-12-16]

Jens Carlsson SciLifeLab Fellow

DOI Crossref

Sinking enhances the degradation of organic particles by marine bacteria

Alcolombri U, Peaudecerf FJ, Fernandez VI, ..., Lee KS, Stocker R

Nat. Geosci. 14 (10) 775-780 [2021-10-00; online 2021-09-23]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Refining the amyloid β peptide and oligomer fingerprint ambiguities in Alzheimer's disease: Mass spectrometric molecular characterization in brain, cerebrospinal fluid, blood, and plasma.

Michno W, Blennow K, Zetterberg H, Brinkmalm G

J. Neurochem. 159 (2) 234-257 [2021-10-00; online 2021-07-27]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Promising potential of boron compounds against Glioblastoma: In Vitro antioxidant, anti-inflammatory and anticancer studies.

Turkez H, Arslan ME, Tatar A, Mardinoglu A

Neurochem Int 149 (-) 105137 [2021-10-00; online 2021-07-19]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 9: Polymyxins: colistin.

EFSA Panel on Biological Hazards (BIOHAZ) , Koutsoumanis K, Allende A, ..., Stella P, Peixe L

EFSA J 19 (10) e06861 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 8: Pleuromutilins: tiamulin and valnemulin.

EFSA Panel on Biological Hazards (BIOHAZ) , Koutsoumanis K, Allende A, ..., Stella P, Peixe L

EFSA J 19 (10) e06860 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 7: Amphenicols: florfenicol and thiamphenicol.

EFSA Panel on Biological Hazards (BIOHAZ) , Koutsoumanis K, Allende A, ..., Stella P, Peixe L

EFSA J 19 (10) e06859 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 6: Macrolides: tilmicosin, tylosin and tylvalosin.

EFSA Panel on Biological Hazards (BIOHAZ) , Koutsoumanis K, Allende A, ..., Stella P, Peixe L

EFSA J 19 (10) e06858 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 5: Lincosamides: lincomycin.

EFSA Panel on Biological Hazards (BIOHAZ) , Koutsoumanis K, Allende A, ..., Stella P, Peixe L

EFSA J 19 (10) e06856 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 4: β-Lactams: amoxicillin and penicillin V.

EFSA Panel on Biological Hazards (BIOHAZ) , Koutsoumanis K, Allende A, ..., Stella P, Peixe L

EFSA J 19 (10) e06855 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 3: Amprolium.

EFSA Panel on Biological Hazards (BIOHAZ) , Koutsoumanis K, Allende A, ..., Stella P, Peixe L

EFSA J 19 (10) e06854 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 2: Aminoglycosides/aminocyclitols: apramycin, paromomycin, neomycin and spectinomycin.

EFSA Panel on Biological Hazards (BIOHAZ) , Allende A, Koutsoumanis K, ..., Stella P, Peixe L

EFSA J 19 (10) e06853 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 1: Methodology, general data gaps and uncertainties.

EFSA Panel on Biological Hazards (BIOHAZ) , Koutsoumanis K, Allende A, ..., Stella P, Peixe L

EFSA J 19 (10) e06852 [2021-10-00; online 2021-10-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Maximum levels of cross-contamination for 24 antimicrobial active substances in non-target feed. Part 13: Diaminopyrimidines: trimethoprim.

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DDLS Fellow Milka Doktorova

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SciLifeLab Fellow Vicent Pelechano

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Fabien Burki SciLifeLab Fellow

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DDLS Fellow Milka Doktorova

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Adil Mardinoglu SciLifeLab Fellow

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Nat. Mater. 20 (8) 1043-1044 [2021-08-00; online 2021-07-28]

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Aggregation and mobility of membrane proteins interplay with local lipid order in the plasma membrane of T cells.

Urbančič I, Schiffelers L, Jenkins E, ..., Sezgin E, Eggeling C

FEBS Lett. 595 (16) 2127-2146 [2021-08-00; online 2021-07-07]

Erdinc Sezgin SciLifeLab Fellow

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Habibi M, Taheri G

PLoS ONE 16 (7) e0255270 [2021-07-29; online 2021-07-29]

DDLS Fellow Golnaz Taheri

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ADP-ribosyltransferases, an update on function and nomenclature.

Lüscher B, Ahel I, Altmeyer M, ..., Zaja R, Ziegler M

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SciLifeLab Fellow Sebastian Deindl

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Harbers L, Agostini F, Nicos M, ..., Bienko M, Crosetto N

Front Oncol 11 (-) 700568 [2021-07-28; online 2021-07-28]

Magda Bienko SciLifeLab Fellow

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Vrettou M, Yan L, Nilsson KW, ..., Nylander I, Comasco E

Sci Rep 11 (1) 15322 [2021-07-28; online 2021-07-28]

Erika Comasco SciLifeLab Fellow

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Özdemir Ö, Marinelli L, Cacciatore I, ..., Mardinoglu A, Turkez H

Z Naturforsch C J Biosci 76 (7-8) 329-335 [2021-07-27; online 2020-09-05]

Adil Mardinoglu SciLifeLab Fellow

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Li X, Kim W, Juszczak K, ..., Zhang C, Mardinoglu A

iScience 24 (7) 102722 [2021-07-23; online 2021-06-12]

Adil Mardinoglu SciLifeLab Fellow

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Vallianatou T, Lin W, Bèchet NB, ..., Lundgaard I, Globisch D

J. Cereb. Blood Flow Metab. - (-) 271678X211033358 [2021-07-22; online 2021-07-22]

Daniel Globisch SciLifeLab Fellow

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Int J Mol Sci 22 (14) - [2021-07-08; online 2021-07-08]

Olof Eriksson SciLifeLab Fellow

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Kundu S, Ali MA, Handin N, ..., Globisch D, Sjöblom T

J. Exp. Clin. Cancer Res. 40 (1) 225 [2021-07-07; online 2021-07-07]

Daniel Globisch SciLifeLab Fellow

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Supplemental Association of Clonal Hematopoiesis With Incident Heart Failure.

Yu B, Roberts MB, Raffield LM, ..., Eaton CB, National Heart, Lung, and Blood Institute TOPMed Consortium

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Abhishek Niroula DDLS Fellow

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Arif M, Zhang C, Li X, ..., Uhlen M, Mardinoglu A

Nucleic Acids Res. 49 (W1) W271-W276 [2021-07-02; online 2021-04-14]

Adil Mardinoglu SciLifeLab Fellow

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Molecules 26 (13) 4035 [2021-07-01; online 2021-07-01]

Alexandra Teleki SciLifeLab Fellow

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Editorial: NK-Myeloid Cell Interactions in the Tumor Microenvironment: Implications for Cancer Immunotherapy.

Wennerberg E, Lundqvist A, Mao Y, Mougiakakos D

Front Immunol 12 (-) 718844 [2021-07-01; online 2021-07-01]

SciLifeLab Fellow Yumeng Mao

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Simultaneous detection of SARS-CoV-2 and pandemic (H1N1) 2009 virus with real-time isothermal platform.

Yu L, Wang J, Li X, ..., Guo X, Yin X

Heliyon 7 (7) e07584 [2021-07-00; online 2021-07-15]

SciLifeLab Fellow Vicent Pelechano

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Safety Assessments of Nickel Boride Nanoparticles on the Human Pulmonary Alveolar Cells by Using Cell Viability and Gene Expression Analyses.

Türkez H, Arslan ME, Sönmez E, ..., Açikyildiz M, Mardinoğlu A

Biol Trace Elem Res 199 (7) 2602-2611 [2021-07-00; online 2020-09-09]

Adil Mardinoglu SciLifeLab Fellow

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STED and parallelized RESOLFT optical nanoscopy of the tubular endoplasmic reticulum and its mitochondrial contacts in neuronal cells.

Damenti M, Coceano G, Pennacchietti F, Bodén A, Testa I

Neurobiol. Dis. 155 (-) 105361 [2021-07-00; online 2021-04-12]

Ilaria Testa SciLifeLab Fellow

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Recommendations for accurate genotyping of SARS-CoV-2 using amplicon-based sequencing of clinical samples.

Kubik S, Marques AC, Xing X, ..., Willig A, Xu Z

Clin. Microbiol. Infect. 27 (7) 1036.e1-1036.e8 [2021-07-00; online 2021-04-02]

SciLifeLab Fellow Vicent Pelechano

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On the origin of the widespread self-compatible allotetraploid Capsella bursa-pastoris (Brassicaceae).

Bachmann JA, Tedder A, Fracassetti M, ..., Köhler C, Slotte T

Heredity (Edinb) 127 (1) 124-134 [2021-07-00; online 2021-04-19]

SciLifeLab Fellow Tanja Slotte

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Molecular Dynamics Simulations of Ion Channels.

Carnevale V, Delemotte L, Howard RJ

Trends Biochem. Sci. 46 (7) 621-622 [2021-07-00; online 2021-04-30]

Lucie Delemotte SciLifeLab Fellow

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Effects of 6 weeks of treatment with dapagliflozin, a sodium-glucose co-transporter-2 inhibitor, on myocardial function and metabolism in patients with type 2 diabetes: A randomized, placebo-controlled, exploratory study.

Oldgren J, Laurila S, Åkerblom A, ..., Oscarsson J, Nuutila P

Diabetes Obes Metab 23 (7) 1505-1517 [2021-07-00; online 2021-03-12]

Olof Eriksson SciLifeLab Fellow

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Distinct genetic regions are associated with differential population susceptibility to chemical exposures.

Kosnik MB, Enroth S, Karlsson O

Environ Int 152 (-) 106488 [2021-07-00; online 2021-03-10]

Oskar Karlsson SciLifeLab Fellow

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DNA Origami Penetration in Cell Spheroid Tissue Models is Enhanced by Wireframe Design.

Wang Y, Benson E, Fördős F, ..., Teixeira AI, Högberg B

Adv. Mater. Weinheim 33 (29) e2008457 [2021-07-00; online 2021-06-06]

Erik Benson SciLifeLab Fellow

PubMed DOI Crossref

Brain reactivity during aggressive response in women with premenstrual dysphoric disorder treated with a selective progesterone receptor modulator.

Kaltsouni E, Fisher PM, Dubol M, ..., Comasco E, Sundström-Poromaa I

Neuropsychopharmacology 46 (8) 1460-1467 [2021-07-00; online 2021-04-29]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Artificial Intelligence for Diagnosis and Gleason Grading of Prostate Cancer in Biopsies-Current Status and Next Steps.

Kartasalo K, Bulten W, Delahunt B, ..., Egevad L, Eklund M

Eur Urol Focus 7 (4) 687-691 [2021-07-00; online 2021-08-12]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

A single-cell type transcriptomics map of human tissues.

Karlsson M, Zhang C, Méar L, ..., Uhlén M, Lindskog C

Sci Adv 7 (31) - [2021-07-00; online 2021-07-28]

Adil Mardinoglu SciLifeLab Fellow

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DNA Blocks the Lethal Effect of Human Beta-Defensin 2 Against Neisseria meningitidis.

Wassing GM, Lidberg K, Sigurlásdóttir S, ..., Jonas K, Jonsson AB

Front Microbiol 12 (-) 697232 [2021-06-30; online 2021-06-30]

Kristina Jonas SciLifeLab Fellow

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Cisplatin inhibits frequency and suppressive activity of monocytic myeloid-derived suppressor cells in cancer patients.

Van Wigcheren GF, De Haas N, Mulder TA, ..., Hato SV, De Vries IJM

Oncoimmunology 10 (1) 1935557 [2021-06-27; online 2021-06-27]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

Pesticide-induced multigenerational effects on amphibian reproduction and metabolism.

Karlsson O, Svanholm S, Eriksson A, ..., Jernerén F, Berg C

Sci. Total Environ. 775 (-) 145771 [2021-06-25; online 2021-02-11]

Oskar Karlsson SciLifeLab Fellow

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COVseq is a cost-effective workflow for mass-scale SARS-CoV-2 genomic surveillance.

Simonetti M, Zhang N, Harbers L, ..., Ghisetti V, Crosetto N

Nat Commun 12 (1) 3903 [2021-06-23; online 2021-06-23]

Magda Bienko SciLifeLab Fellow

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Accelerated regression-based summary statistics for discrete stochastic systems via approximate simulators.

Jiang RM, Wrede F, Singh P, Hellander A, Petzold LR

BMC Bioinformatics 22 (1) 339 [2021-06-23; online 2021-06-23]

Prashant Singh SciLifeLab Fellow

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The Influence of Drug–Polymer Solubility on Laser-Induced In Situ Drug Amorphization Using Photothermal Plasmonic Nanoparticles

Hempel NJ, Merkl P, Knopp MM, ..., Sotiriou GA, Löbmann K

Pharmaceutics 13 (6) 917 [2021-06-21; online 2021-06-21]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

Application of high-throughput 5'P sequencing for the study of co-translational mRNA decay.

Zhang Y, Pelechano V

STAR Protoc 2 (2) 100447 [2021-06-18; online 2021-03-31]

SciLifeLab Fellow Vicent Pelechano

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Multianalyte serology in home-sampled blood enables an unbiased assessment of the immune response against SARS-CoV-2.

Roxhed N, Bendes A, Dale M, ..., Fredolini C, Schwenk JM

Nat Commun 12 (1) 3695 [2021-06-17; online 2021-06-17]

SciLifeLab Fellow Simon Elsässer

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Means, Motive, and Opportunity: Do Non-Islet-Reactive Infiltrating T Cells Contribute to Autoimmunity in Type 1 Diabetes?

Rodriguez-Calvo T, Christoffersson G, Bender C, ..., Kent SC, James EA

Front Immunol 12 (-) 683091 [2021-06-16; online 2021-06-16]

Gustaf Christoffersson SciLifeLab Fellow

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Prognostic implications of troponin T variations in inherited cardiomyopathies using systems biology.

Shakur R, Ochoa JP, Robinson AJ, ..., Vihinen M, Monserrat L

NPJ Genom Med 6 (1) 47 [2021-06-14; online 2021-06-14]

Abhishek Niroula DDLS Fellow

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Bicyclic β-Sheet Mimetics that Target the Transcriptional Coactivator β-Catenin and Inhibit Wnt Signaling.

Wendt M, Bellavita R, Gerber A, ..., Hennig S, Grossmann TN

Angew. Chem. Int. Ed. Engl. 60 (25) 13937-13944 [2021-06-14; online 2021-05-05]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Leveraging breeding programs and genomic data in Norway spruce (Picea abies L. Karst) for GWAS analysis.

Chen ZQ, Zan Y, Milesi P, ..., Lascoux M, Wu HX

Genome Biol. 22 (1) 179 [2021-06-13; online 2021-06-13]

Pascal Milesi SciLifeLab Fellow

DOI Crossref

Utilizing Laser Activation of Photothermal Plasmonic Nanoparticles to Induce On-Demand Drug Amorphization inside a Tablet

Hempel NJ, Merkl P, Asad S, ..., Sotiriou GA, Löbmann K

Mol. Pharmaceutics 18 (6) 2254-2262 [2021-06-07; online 2021-05-05]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

The chaperonin CCT8 controls proteostasis essential for T cell maturation, selection, and function.

Oftedal BE, Maio S, Handel AE, ..., Maizels RM, Holländer GA

Commun Biol 4 (1) 681 [2021-06-03; online 2021-06-03]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Imaging of the Glucagon Receptor in Subjects with Type 2 Diabetes.

Eriksson O, Velikyan I, Haack T, ..., Tillner J, Wagner M

Journal of nuclear medicine : official publication, Society of Nuclear Medicine 62 (6) 833-838 [2021-06-01; online 2020-10-23]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Unboxing mutations: Connecting mutation types with evolutionary consequences.

Berdan EL, Blanckaert A, Slotte T, ..., Westram AM, Fragata I

Mol. Ecol. 30 (12) 2710-2723 [2021-06-00; online 2021-05-19]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Towards policies that capture the expected value of biomolecular diversity for drug discovery, human health, and well-being.

Pesic M, Egamberdieva D, Kolodziejczyk B, ..., Neergheen VS, Kagansky A

Biol Futur 72 (2) 119-125 [2021-06-00; online 2020-09-07]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

More Than Just Letters and Chemistry: Genomics Goes Mechanics.

Deindl S, Elf J

Trends Biochem. Sci. 46 (6) 431-432 [2021-06-00; online 2021-04-12]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Interobserver reproducibility of perineural invasion of prostatic adenocarcinoma in needle biopsies.

Egevad L, Delahunt B, Samaratunga H, ..., Eklund M, Ruusuvuori P

Virchows Arch. 478 (6) 1109-1116 [2021-06-00; online 2021-02-03]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Inhibition of RPS6K reveals context-dependent Akt activity in luminal breast cancer cells.

Erdem C, Lee AV, Taylor DL, Lezon TR

PLoS Comput Biol 17 (6) e1009125 [2021-06-00; online 2021-06-30]

Cemal Erdem DDLS Fellow

PubMed DOI Crossref

Following spatial Aβ aggregation dynamics in evolving Alzheimer's disease pathology by imaging stable isotope labeling kinetics.

Michno W, Stringer KM, Enzlein T, ..., Edwards FA, Hanrieder J

Sci Adv 7 (25) - [2021-06-00; online 2021-06-16]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Chromogranin A regulates gut permeability via the antagonistic actions of its proteolytic peptides.

Muntjewerff EM, Tang K, Lutter L, ..., van den Bogaart G, Mahata SK

Acta Physiol 232 (2) e13655 [2021-06-00; online 2021-05-06]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Achieving Efficient Fragment Screening at XChem Facility at Diamond Light Source.

Douangamath A, Powell A, Fearon D, ..., Gorrie-Stone T, von Delft F

J Vis Exp - (171) - [2021-05-29; online 2021-05-29]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Using TIF-Seq2 to investigate association between 5´ and 3´mRNA ends.

Li B, Marques S, Wang J, Pelechano V

Meth. Enzymol. 655 (-) 85-118 [2021-05-28; online 2021-05-28]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Perivascular Macrophages Regulate Blood Flow Following Tissue Damage.

Vågesjö E, Parv K, Ahl D, ..., Christoffersson G, Phillipson M

Circ. Res. 128 (11) 1694-1707 [2021-05-28; online 2021-04-21]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Editorial: Application of Systems Biology in Molecular Characterization and Diagnosis of Cancer.

Zhang C, Wei Y, Mardinoglu A, Zhang P

Front Mol Biosci 8 (-) 668146 [2021-05-28; online 2021-05-28]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Phagocytosis and Efferocytosis by Resident Macrophages in the Mouse Pancreas.

Parv K, Westerlund N, Merchant K, ..., Lindsay RS, Christoffersson G

Front Endocrinol (Lausanne) 12 (-) 606175 [2021-05-25; online 2021-05-25]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Genomic basis of parallel adaptation varies with divergence in Arabidopsis and its relatives.

Bohutínská M, Vlček J, Yair S, ..., Slotte T, Kolář F

Proc. Natl. Acad. Sci. U.S.A. 118 (21) - [2021-05-25; online 2021-05-19]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

A combined approach for single-cell mRNA and intracellular protein expression analysis.

Reimegård J, Tarbier M, Danielsson M, ..., Friedländer MR, Gallant CJ

Commun Biol 4 (1) 624 [2021-05-25; online 2021-05-25]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Microbial Community Interactions Are Sensitive to Small Changes in Temperature.

Burman E, Bengtsson-Palme J

Front Microbiol 12 (-) 672910 [2021-05-21; online 2021-05-21]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Reply to Nagle et al.: The universal stiffening effects of cholesterol on lipid membranes.

Ashkar R, Doktorova M, Heberle FA, ..., Khelashvili G, Brown MF

Proc. Natl. Acad. Sci. U.S.A. 118 (20) - [2021-05-18; online 2021-05-07]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

The human exposome and health in the Anthropocene.

Karlsson O, Rocklöv J, Lehoux AP, ..., Blunt MJ, Birnbaum LS

Int J Epidemiol 50 (2) 378-389 [2021-05-17; online 2020-12-23]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Phylogenomic Insights into the Origin of Primary Plastids.

Irisarri I, Strassert JFH, Burki F

Syst. Biol. - (-) - [2021-05-14; online 2021-05-14]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Comprehensive dataset of shotgun metagenomes from oxygen stratified freshwater lakes and ponds.

Buck M, Garcia SL, Fernandez L, ..., Bertilsson S, Peura S

Sci Data 8 (1) 131 [2021-05-14; online 2021-05-14]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

Informing Pharmacokinetic Models With Physiological Data: Oral Population Modeling of L-Serine in Humans.

Bosley JR, Björnson E, Zhang C, ..., Borén J, Mardinoglu A

Front. Pharmacol. 12 (-) 643179 [2021-05-13; online 2021-05-13]

Adil Mardinoglu SciLifeLab Fellow

DOI Crossref

Comparative Genomics Analysis of Keratin-Degrading Chryseobacterium Species Reveals Their Keratinolytic Potential for Secondary Metabolite Production

Kang D, Shoaie S, Jacquiod S, Sørensen SJ, Ledesma-Amaro R

Microorganisms 9 (5) 1042 [2021-05-12; online 2021-05-12]

Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

Integrative transcriptomic analysis of tissue-specific metabolic crosstalk after myocardial infarction.

Arif M, Klevstig M, Benfeitas R, ..., Mardinoglu A, Boren J

Elife 10 (-) - [2021-05-11; online 2021-05-11]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Freshwater Chlorobia Exhibit Metabolic Specialization among Cosmopolitan and Endemic Populations.

Garcia SL, Mehrshad M, Buck M, ..., Greening C, Peura S

mSystems 6 (3) - [2021-05-11; online 2021-05-11]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

The Genomic Architecture and Evolutionary Fates of Supergenes.

Gutiérrez-Valencia J, Hughes PW, Berdan EL, Slotte T

Genome Biol Evol 13 (5) - [2021-05-07; online 2021-03-20]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Environmental Enrichment Induces Epigenomic and Genome Organization Changes Relevant for Cognition.

Espeso-Gil S, Holik AZ, Bonnin S, ..., Hor CN, Ossowski S

Front Mol Neurosci 14 (-) 664912 [2021-05-05; online 2021-05-05]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

The Chaperonin GroESL Facilitates Caulobacter crescentus Cell Division by Supporting the Functions of the Z-Ring Regulators FtsA and FzlA.

Schroeder K, Heinrich K, Neuwirth I, Jonas K

MBio 12 (3) - [2021-05-04; online 2021-05-04]

Kristina Jonas SciLifeLab Fellow

DOI Crossref

Accuratede novoidentification of biosynthetic gene clusters with GECCO

Carroll LM, Larralde M, Fleck JS, ..., Cappio E, Zeller G

- - (-) - [2021-05-04; online 2021-05-04]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

A microscopy-compatible temperature regulation system for single-cell phenotype analysis - demonstrated by thermoresponse mapping of microalgae.

Andersson M, Johansson S, Bergman H, ..., Behrendt L, Tenje M

Lab Chip 21 (9) 1694-1705 [2021-05-04; online 2021-05-06]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Keeping up with the Bacillus cereus group: taxonomy through the genomics era and beyond.

Carroll LM, Cheng RA, Wiedmann M, Kovac J

Crit Rev Food Sci Nutr 62 (28) 7677-7702 [2021-05-03; online 2021-05-03]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Cannabidiol inhibits the skeletal muscle Nav1.4 by blocking its pore and by altering membrane elasticity.

Ghovanloo MR, Choudhury K, Bandaru TS, ..., Goodchild SJ, Ruben PC

J. Gen. Physiol. 153 (5) - [2021-05-03; online 2021-04-10]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Volumetric live cell imaging with three-dimensional parallelized RESOLFT microscopy.

Bodén A, Pennacchietti F, Coceano G, ..., Ratz M, Testa I

Nat. Biotechnol. 39 (5) 609-618 [2021-05-00; online 2021-01-11]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Strategies for Constructing and Operating DNA Origami Linear Actuators.

Benson E, Carrascosa Marzo R, Bath J, Turberfield AJ

Small 17 (20) e2007704 [2021-05-00; online 2021-05-04]

Erik Benson SciLifeLab Fellow

PubMed DOI Crossref

Epithelium-autonomous NAIP/NLRC4 prevents TNF-driven inflammatory destruction of the gut epithelial barrier in Salmonella-infected mice.

Fattinger SA, Geiser P, Samperio Ventayol P, ..., Hardt WD, Sellin ME

Mucosal Immunol 14 (3) 615-629 [2021-05-00; online 2021-03-17]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Can molecular dynamics simulations improve the structural accuracy and virtual screening performance of GPCR models?

Kapla J, Rodríguez-Espigares I, Ballante F, Selent J, Carlsson J

PLoS Comput Biol 17 (5) e1008936 [2021-05-00; online 2021-05-13]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

The Protein Quality Control Network in Caulobacter crescentus.

Schroeder K, Jonas K

Front Mol Biosci 8 (-) 682967 [2021-04-30; online 2021-04-30]

Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

A SARS-CoV-2 (COVID-19) biological network to find targets for drug repurposing.

Habibi M, Taheri G, Aghdam R

Sci Rep 11 (1) 9378 [2021-04-30; online 2021-04-30]

DDLS Fellow Golnaz Taheri

PubMed DOI Crossref

Informing NMR experiments with molecular dynamics simulations to characterize the dominant activated state of the KcsA ion channel.

Pérez-Conesa S, Keeler EG, Zhang D, Delemotte L, McDermott AE

J Chem Phys 154 (16) 165102 [2021-04-28; online 2021-05-05]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

How Does Liquid-Liquid Phase Separation in Model Membranes Reflect Cell Membrane Heterogeneity?

Sych T, Gurdap CO, Wedemann L, Sezgin E

Membranes (Basel) 11 (5) - [2021-04-28; online 2021-04-28]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Molecular pathways behind acquired obesity: Adipose tissue and skeletal muscle multiomics in monozygotic twin pairs discordant for BMI.

van der Kolk BW, Saari S, Lovric A, ..., Pajukanta P, Pietiläinen KH

Cell Rep Med 2 (4) 100226 [2021-04-20; online 2021-03-30]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Bacterial detection by NAIP/NLRC4 elicits prompt contractions of intestinal epithelial cell layers.

Samperio Ventayol P, Geiser P, Di Martino ML, ..., Eriksson J, Sellin ME

Proc. Natl. Acad. Sci. U.S.A. 118 (16) - [2021-04-20; online 2021-04-14]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Scalable machine learning-assisted model exploration and inference using Sciope.

Singh P, Wrede F, Hellander A

Bioinformatics 37 (2) 279-281 [2021-04-19; online 2020-07-25]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Germline variants at SOHLH2 influence multiple myeloma risk.

Duran-Lozano L, Thorleifsson G, Lopez de Lapuente Portilla A, ..., Stefansson K, Nilsson B

Blood Cancer J 11 (4) 76 [2021-04-19; online 2021-04-19]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

PET Imaging of GPR44 by Antagonist [11C]MK-7246 in Pigs.

Cheung P, Zhang B, Puuvuori E, ..., Eriksson J, Eriksson O

Biomedicines 9 (4) - [2021-04-16; online 2021-04-16]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Stress-induced transcriptional memory accelerates promoter-proximal pause release and decelerates termination over mitotic divisions.

Vihervaara A, Mahat DB, Himanen SV, ..., Lis JT, Sistonen L

Mol. Cell 81 (8) 1715-1731.e6 [2021-04-15; online 2021-03-29]

Anniina Vihervaara SciLifeLab Fellow

PubMed DOI Crossref

A unique histone 3 lysine 14 chromatin signature underlies tissue-specific gene regulation.

Regadas I, Dahlberg O, Vaid R, ..., Wen J, Mannervik M

Mol. Cell 81 (8) 1766-1780.e10 [2021-04-15; online 2021-02-24]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

DNA methylation in cord blood in association with prenatal depressive symptoms.

Kallak TK, Bränn E, Fransson E, ..., Lyle R, Skalkidou A

Clin Epigenetics 13 (1) 78 [2021-04-12; online 2021-04-12]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Revealing the Metabolic Alterations during Biofilm Development of Burkholderia cenocepacia Based on Genome-Scale Metabolic Modeling.

Altay O, Zhang C, Turkez H, ..., Uhlén M, Mardinoglu A

Metabolites 11 (4) - [2021-04-05; online 2021-04-05]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Resin-acid derivatives bind to multiple sites on the voltage-sensor domain of the Shaker potassium channel.

Silverå Ejneby M, Gromova A, Ottosson NE, ..., Elinder F, Delemotte L

J. Gen. Physiol. 153 (4) - [2021-04-05; online 2021-03-09]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Genome Size Reduction and Transposon Activity Impact tRNA Gene Diversity While Ensuring Translational Stability in Birds.

Ottenburghs J, Geng K, Suh A, Kutter C

Genome Biol Evol 13 (4) - [2021-04-05; online 2021-02-04]

Claudia Kutter SciLifeLab Fellow

DOI Crossref

High-throughput 5′P sequencing enables the study of degradation-associated ribosome stalls

Zhang Y, Pelechano V

Cell Reports Methods 1 (1) 100001 [2021-04-02]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

The genome of Draba nivalis shows signatures of adaptation to the extreme environmental stresses of the Arctic.

Nowak MD, Birkeland S, Mandáková T, ..., Lysak MA, Brochmann C

Mol Ecol Resour 21 (3) 661-676 [2021-04-00; online 2020-11-12]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Longitudinal Assessment of 11C-5-Hydroxytryptophan Uptake in Pancreas After Debut of Type 1 Diabetes.

Espes D, Carlsson PO, Selvaraju RK, ..., Korsgren O, Eriksson O

Diabetes 70 (4) 966-975 [2021-04-00; online 2021-01-21]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Exploring the GLP-1-GLP-1R axis in porcine pancreas and gastrointestinal tract in vivo by ex vivo autoradiography.

Manell E, Puuvuori E, Svensson A, ..., Jensen Waern M, Eriksson O

BMJ Open Diabetes Res Care 9 (1) - [2021-04-00; online 2021-04-28]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Drug Occupancy Assessment at the Glucose-Dependent Insulinotropic Polypeptide Receptor by Positron Emission Tomography.

Eriksson O, Velikyan I, Haack T, ..., Pierrou S, Wagner M

Diabetes 70 (4) 842-853 [2021-04-00; online 2021-02-05]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

A genomic catalog of Earth's microbiomes.

Nayfach S, Roux S, Seshadri R, ..., Kyrpides NC, Eloe-Fadrosh EA

Nat. Biotechnol. 39 (4) 499-509 [2021-04-00; online 2020-11-09]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

A molecular timescale for eukaryote evolution with implications for the origin of red algal-derived plastids.

Strassert JFH, Irisarri I, Williams TA, Burki F

Nat Commun 12 (1) 1879 [2021-03-25; online 2021-03-25]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Addressing the heterogeneity in liver diseases using biological networks.

Lam S, Doran S, Yuksel HH, ..., Uhlen M, Mardinoglu A

Brief. Bioinformatics 22 (2) 1751-1766 [2021-03-22; online 2020-03-24]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Dysbiosis of the Human Oral Microbiome During the Menstrual Cycle and Vulnerability to the External Exposures of Smoking and Dietary Sugar.

Bostanci N, Krog MC, Hugerth LW, ..., Nielsen HS, Schuppe-Koistinen I

Front. Cell. Infect. Microbiol. 11 (-) 625229 [2021-03-19; online 2021-03-19]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

The GenTree Platform: growth traits and tree-level environmental data in 12 European forest tree species.

Opgenoorth L, Dauphin B, Benavides R, ..., Aravanopoulos FA, Cavers S

Gigascience 10 (3) - [2021-03-18; online 2021-03-19]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Ca2+-dependent mechanism of membrane insertion and destabilization by the SARS-CoV-2 fusion peptide.

Khelashvili G, Plante A, Doktorova M, Weinstein H

Biophys. J. 120 (6) 1105-1119 [2021-03-16; online 2021-02-23]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

High Expression of LINC01268 is Positively Associated with Hepatocellular Carcinoma Progression via Regulating MAP3K7.

Jin X, Fu W, Li D, ..., Kutter C, Li Y

Onco Targets Ther 14 (-) 1753-1769 [2021-03-08; online 2021-03-08]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Phosphodiesterase 4A confers resistance to PGE2-mediated suppression in CD25+ /CD54+ NK cells.

Chen Z, Yang Y, Neo SY, ..., Sarhan D, Lundqvist A

EMBO Rep. 22 (3) e51329 [2021-03-03; online 2021-01-22]

SciLifeLab Fellow Yumeng Mao

DOI Crossref

ZFP207 controls pluripotency by multiple post-transcriptional mechanisms

Malla S, Bhattarai DP, Melguizo-Sanchis D, ..., Kutter C, Aguilo F

- - (-) - [2021-03-02; online 2021-03-02]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Ulipristal Acetate for Treatment of Premenstrual Dysphoric Disorder: A Proof-of-Concept Randomized Controlled Trial.

Comasco E, Kopp Kallner H, Bixo M, ..., Epperson CN, Sundström-Poromaa I

Am J Psychiatry 178 (3) 256-265 [2021-03-01; online 2020-12-10]

Erika Comasco SciLifeLab Fellow

DOI Crossref

The GenTree Leaf Collection: Inter‐ and intraspecific leaf variation in seven forest tree species in Europe

Benavides R, Carvalho B, Bastias CC, ..., Fady B, Valladares F

Global Ecol. Biogeogr. 30 (3) 590-597 [2021-03-00; online 2021-01-06]

Pascal Milesi SciLifeLab Fellow

DOI Crossref

Systematic analysis of gut microbiome reveals the role of bacterial folate and homocysteine metabolism in Parkinson’s disease

Rosario D, Bidkhori G, Lee S, ..., Mardinoglu A, Shoaie S

Cell Reports 34 (9) 108807 [2021-03-00; online 2021-03-00]

Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

No evidence for a placental microbiome in human pregnancies at term.

Sterpu I, Fransson E, Hugerth LW, ..., Wiberg-Itzel E, Schuppe-Koistinen I

Am J Obstet Gynecol 224 (3) 296.e1-296.e23 [2021-03-00; online 2020-08-29]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Author Correction: Inherited causes of clonal haematopoiesis in 97,691 whole genomes.

Bick AG, Weinstock JS, Nandakumar SK, ..., Kathiresan S, Natarajan P

Nature 591 (7851) E27 [2021-03-00; online 2021-03-13]

Abhishek Niroula DDLS Fellow

DOI Crossref

3D-printing of solid lipid tablets from emulsion gels

Johannesson J, Khan J, Hubert M, Teleki A, Bergström CAS

Int J Pharm 597 (-) 120304 [2021-03-00; online 2021-03-00]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

Antibiotic Resistance in Shiga Toxigenic Escherichia coli Isolates from Surface Waters and Sediments in a Mixed Use Urban Agricultural Landscape.

Ma Y, Chen J, Fong K, ..., Delaquis P, Wang S

Antibiotics (Basel) 10 (3) - [2021-02-26; online 2021-02-26]

DDLS Fellow Laura Carroll

DOI Crossref

The Organelle in the Ointment: cryptic mitochondria account for many unknown sequences in cross-species microbiome comparisons

Sonett D, Brown T, Bengtsson-Palme J, Padilla-Gamiño JL, Zaneveld JR

bioRxiv preprint - (-) - [2021-02-24; online 2021-02-24]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Accelerating target deconvolution for therapeutic antibody candidates using highly parallelized genome editing.

Mattsson J, Ekdahl L, Junghus F, ..., Teige I, Nilsson B

Nat Commun 12 (1) 1277 [2021-02-24; online 2021-02-24]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Spatial Regulation of T-Cell Signaling by Programmed Death-Ligand 1 on Wireframe DNA Origami Flat Sheets.

Fang T, Alvelid J, Spratt J, ..., Testa I, Teixeira AI

ACS Nano 15 (2) 3441-3452 [2021-02-23; online 2021-02-08]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Chenodeoxycholic Acid Modulates Bile Acid Synthesis Independent of Fibroblast Growth Factor 19 in Primary Human Hepatocytes.

Johansson H, Søndergaard JN, Jorns C, Kutter C, Ellis ECS

Front Endocrinol (Lausanne) 11 (-) 554922 [2021-02-22; online 2021-02-22]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Mechanism of membrane-tethered mitochondrial protein synthesis.

Itoh Y, Andréll J, Choi A, ..., Battersby BJ, Amunts A

Science (New York, N.Y.) 371 (6531) 846-849 [2021-02-19; online 2021-02-20]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Continuous human uterine NK cell differentiation in response to endometrial regeneration and pregnancy.

Strunz B, Bister J, Jönsson H, ..., Ivarsson MA, Björkström NK

Sci Immunol 6 (56) - [2021-02-19; online 2021-02-19]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Defective ALC1 nucleosome remodeling confers PARPi sensitization and synthetic lethality with HRD.

Hewitt G, Borel V, Segura-Bayona S, ..., Deindl S, Boulton SJ

Mol. Cell 81 (4) 767-783.e11 [2021-02-18; online 2020-12-16]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Premature Menopause, Clonal Hematopoiesis, and Coronary Artery Disease in Postmenopausal Women.

Honigberg MC, Zekavat SM, Niroula A, ..., NHLBI Trans-Omics for Precision Medicine Program , Natarajan P

Circulation 143 (5) 410-423 [2021-02-02; online 2020-11-09]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Bistability in oxidative stress response determines the migration behavior of phytoplankton in turbulence.

Carrara F, Sengupta A, Behrendt L, Vardi A, Stocker R

Proc. Natl. Acad. Sci. U.S.A. 118 (5) - [2021-02-02; online 2021-01-27]

Lars Behrendt SciLifeLab Fellow

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Spatiotemporal dissection of the cell cycle with single-cell proteogenomics.

Mahdessian D, Cesnik AJ, Gnann C, ..., Sullivan DP, Lundberg E

Nature 590 (7847) 649-654 [2021-02-00; online 2021-02-24]

Adil Mardinoglu SciLifeLab Fellow

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Radiolabelling and positron emission tomography imaging of a high-affinity peptide binder to collagen type 1.

Rosestedt M, Velikyan I, Rosenström U, ..., Nordeman P, Eriksson O

Nucl. Med. Biol. 93 (-) 54-62 [2021-02-00; online 2020-11-28]

Olof Eriksson SciLifeLab Fellow

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Phylogenomics of the tropical plant family Ochnaceae using targeted enrichment of nuclear genes and 250+ taxa

Schneider JV, Jungcurt T, Cardoso D, ..., Berberich T, Zizka G

TAXON 70 (1) 48-71 [2021-02-00; online 2020-12-31]

DDLS Fellow Tobias Andermann

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Optofluidic Raman-activated cell sorting for targeted genome retrieval or cultivation of microbial cells with specific functions.

Lee KS, Pereira FC, Palatinszky M, ..., Wagner M, Stocker R

Nat Protoc 16 (2) 634-676 [2021-02-00; online 2020-12-11]

Lars Behrendt SciLifeLab Fellow

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NGSpeciesID: DNA barcode and amplicon consensus generation from long-read sequencing data.

Sahlin K, Lim MCW, Prost S

Ecol Evol 11 (3) 1392-1398 [2021-02-00; online 2021-01-11]

Kristoffer Sahlin SciLifeLab Fellow

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Model membrane systems to reconstitute immune cell signaling.

Céspedes PF, Beckers D, Dustin ML, Sezgin E

FEBS J. 288 (4) 1070-1090 [2021-02-00; online 2020-08-03]

Erdinc Sezgin SciLifeLab Fellow

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Hybrid seed incompatibility in Capsella is connected to chromatin condensation defects in the endosperm.

Dziasek K, Simon L, Lafon-Placette C, ..., Slotte T, Köhler C

PLoS Genet 17 (2) e1009370 [2021-02-00; online 2021-02-11]

SciLifeLab Fellow Tanja Slotte

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Epithelial inflammasomes in the defense against Salmonella gut infection.

Fattinger SA, Sellin ME, Hardt WD

Curr Opin Microbiol 59 (-) 86-94 [2021-02-00; online 2020-10-28]

Mikael Sellin SciLifeLab Fellow

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Comparison of two arylsulfatases for targeted mass spectrometric analysis of microbiota-derived metabolites

Jain A, Correia MSP, Meistermann H, ..., Löhr JM, Globisch D

J Pharm Biomed Anal 195 (-) 113818 [2021-02-00; online 2021-02-00]

Daniel Globisch SciLifeLab Fellow

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Character and environmental lability of cyanobacteria‐derived dissolved organic matter

Patriarca C, Sedano‐Núñez VT, Garcia SL, ..., Tranvik LJ, Hawkes JA

Limnol. Oceanogr. 66 (2) 496-509 [2021-02-00; online 2020-10-09]

Sarahi Garcia SciLifeLab Fellow

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Acute kidney injury leading to CKD is associated with a persistence of metabolic dysfunction and hypertriglyceridemia

Harzandi A, Lee S, Bidkhori G, ..., Shoaie S, Sharpe CC

iScience 24 (2) 102046 [2021-02-00; online 2021-02-00]

Saeed Shoaie SciLifeLab Fellow

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iucn_sim : a new program to simulate future extinctions based on IUCN threat status

Andermann T, Faurby S, Cooke R, Silvestro D, Antonelli A

Ecography 44 (2) 162-176 [2021-02-00; online 2020-11-10]

DDLS Fellow Tobias Andermann

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Epidemiological modeling in StochSS Live!

Jiang R, Jacob B, Geiger M, ..., Hellander A, Petzold L

Bioinformatics - (-) - [2021-01-29; online 2021-01-29]

Prashant Singh SciLifeLab Fellow

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Identification of ligand-specific G protein-coupled receptor states and prediction of downstream efficacy via data-driven modeling.

Fleetwood O, Carlsson J, Delemotte L

Elife 10 (-) - [2021-01-28; online 2021-01-28]

Jens Carlsson Lucie Delemotte SciLifeLab Fellow

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Cellocity: A Python package for analysis of confluent cell layer dynamics

Eriksson J, Styrström D, Sellin M

JOSS 6 (57) 2818 [2021-01-28; online 2021-01-28]

Mikael Sellin SciLifeLab Fellow

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Discovery of Functional Alternatively Spliced PKM Transcripts in Human Cancers.

Li X, Kim W, Arif M, ..., Zhang C, Mardinoglu A

Cancers (Basel) 13 (2) - [2021-01-19; online 2021-01-19]

Adil Mardinoglu SciLifeLab Fellow

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Direct detection of SARS-CoV-2 using non-commercial RT-LAMP reagents on heat-inactivated samples.

Alekseenko A, Barrett D, Pareja-Sanchez Y, ..., Yin X, Pelechano V

Sci Rep 11 (1) 1820 [2021-01-19; online 2021-01-19]

SciLifeLab Fellow Simon Elsässer Vicent Pelechano

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Single-Molecule, Super-Resolution, and Functional Analysis of G Protein-Coupled Receptor Behavior Within the T Cell Immunological Synapse.

Felce JH, Parolini L, Sezgin E, ..., Frater J, Dustin ML

Front Cell Dev Biol 8 (-) 608484 [2021-01-18; online 2021-01-18]

Erdinc Sezgin SciLifeLab Fellow

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Nradd Acts as a Negative Feedback Regulator of Wnt/β-Catenin Signaling and Promotes Apoptosis.

Ozalp O, Cark O, Azbazdar Y, ..., Sezgin E, Ozhan G

Biomolecules 11 (1) - [2021-01-14; online 2021-01-14]

Erdinc Sezgin SciLifeLab Fellow

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Salmonella enterica Serovar Typhimurium Exploits Cycling through Epithelial Cells To Colonize Human and Murine Enteroids.

Geiser P, Di Martino ML, Samperio Ventayol P, ..., Hellström PM, Sellin ME

MBio 12 (1) - [2021-01-12; online 2021-01-12]

Mikael Sellin SciLifeLab Fellow

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A functional connection between translation elongation and protein folding at the ribosome exit tunnel in Saccharomyces cerevisiae.

Rodríguez-Galán O, García-Gómez JJ, Rosado IV, ..., Kressler D, de la Cruz J

Nucleic Acids Res. 49 (1) 206-220 [2021-01-11; online 2020-12-18]

SciLifeLab Fellow Vicent Pelechano

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Universal and taxon-specific trends in protein sequences as a function of age.

James JE, Willis SM, Nelson PG, ..., Kosinski LJ, Masel J

Elife 10 (-) - [2021-01-08; online 2021-01-08]

DDLS Fellow Jennifer James

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Obese mother offspring have hepatic lipidic modulation that contributes to sex-dependent metabolic adaptation later in life.

Savva C, Helguero LA, González-Granillo M, ..., Kutter C, Korach-André M

Commun Biol 4 (1) 14 [2021-01-04; online 2021-01-04]

Claudia Kutter SciLifeLab Fellow

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Error correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis.

Sahlin K, Medvedev P

Nat Commun 12 (1) 2 [2021-01-04; online 2021-01-04]

Kristoffer Sahlin SciLifeLab Fellow

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CAFE: a software suite for analysis of paired-sample transposon insertion sequencing data.

Abramova A, Osińska A, Kunche H, Burman E, Bengtsson-Palme J

Bioinformatics - (-) - [2021-01-04; online 2021-01-04]

DDLS Fellow Johan Bengtsson-Palme

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The effect of Toll-like receptor stimulation on the motility of regulatory T cells.

Chodaczek G, Pagni PP, Christoffersson G, ..., Wegrzyn AS, von Herrath M

J. Autoimmun. 116 (-) 102563 [2021-01-00; online 2020-11-12]

Gustaf Christoffersson SciLifeLab Fellow

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Systems biology based drug repositioning for development of cancer therapy.

Turanli B, Altay O, Borén J, ..., Arga KY, Mardinoglu A

Semin. Cancer Biol. 68 (-) 47-58 [2021-01-00; online 2019-09-27]

Adil Mardinoglu SciLifeLab Fellow

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Proteomics-Informed Identification of Luminal Targets For In Situ Diagnosis of Inflammatory Bowel Disease.

Asad S, Wegler C, Ahl D, ..., Artursson P, Teleki A

J Pharm Sci 110 (1) 239-250 [2021-01-00; online 2020-11-04]

Alexandra Teleki SciLifeLab Fellow

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News ways of understanding the complex biology of diabetes using PET.

Eriksson O, Långström B, Antoni G

Nucl. Med. Biol. 92 (-) 65-71 [2021-01-00; online 2020-04-27]

Olof Eriksson SciLifeLab Fellow

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Neuroimaging the menstrual cycle: A multimodal systematic review.

Dubol M, Epperson CN, Sacher J, ..., Sundström-Poromaa I, Comasco E

Front Neuroendocrinol 60 (-) 100878 [2021-01-00; online 2020-10-22]

Erika Comasco SciLifeLab Fellow

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JAK inhibition reduces SARS-CoV-2 liver infectivity and modulates inflammatory responses to reduce morbidity and mortality.

Stebbing J, Sánchez Nievas G, Falcone M, ..., Abizanda P, Lauschke VM

Sci Adv 7 (1) - [2021-01-00; online 2021-01-01]

Claudia Kutter SciLifeLab Fellow

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Ligand design by targeting a binding site water

Matricon P, Suresh RR, Gao ZG, ..., Jacobson KA, Carlsson J

Chem Sci 12 (3) 960-968 [2021-00-00; online 2021-00-00]

Jens Carlsson SciLifeLab Fellow

DOI Crossref

Investigation of the individual human sulfatome in plasma and urine samples reveals an age-dependency

Correia MSP, Thapa B, Vujasinovic M, Löhr JM, Globisch D

RSC Adv. 11 (55) 34788-34794 [2021-00-00; online 2021-00-00]

Daniel Globisch SciLifeLab Fellow

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5´XP sRNA-seq: efficient identification of transcripts with and without 5´ phosphorylation reveals evolutionary conserved small RNA.

Kugelberg U, Nätt D, Skog S, Kutter C, Öst A

RNA Biol - (-) 1-12 [2020-12-31; online 2020-12-31]

Claudia Kutter SciLifeLab Fellow

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Mechanistic Insights into Regulation of the ALC1 Remodeler by the Nucleosome Acidic Patch.

Lehmann LC, Bacic L, Hewitt G, ..., Boulton SJ, Deindl S

Cell Reports 33 (12) 108529 [2020-12-22; online 2020-12-29]

SciLifeLab Fellow Sebastian Deindl

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Ileocolonic Histopathological and Microbial Alterations in the Irritable Bowel Syndrome: A Nested Community Case-Control Study.

Talley NJ, Alexander JL, Walker MM, ..., Powell N, Andreasson A

Clin Transl Gastroenterol 12 (1) e00296 [2020-12-22; online 2020-12-22]

DDLS Fellow Luisa Hugerth

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Ancient microRNA profiles of a 14,300-year-old canid samples confirm taxonomic origin and give glimpses into tissue-specific gene regulation from the Pleistocene.

Fromm B, Tarbier M, Smith O, ..., Gilbert TP, Friedlander MR

RNA - (-) - [2020-12-15; online 2020-12-15]

Marc Friedländer SciLifeLab Fellow

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Automated Removal of Non-homologous Sequence Stretches with PREQUAL.

Irisarri I, Burki F, Whelan S

Methods in molecular biology (Clifton, N.J.) 2231 (-) 147-162 [2020-12-09; online 2020-12-09]

Fabien Burki SciLifeLab Fellow

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Circulating miRNA Spaceflight Signature Reveals Targets for Countermeasure Development.

Malkani S, Chin CR, Cekanaviciute E, ..., Mason CE, Beheshti A

Cell Reports 33 (10) 108448 [2020-12-08; online 2020-11-25]

Marc Friedländer SciLifeLab Fellow

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Mitochondrial DNA Sequence Diversity in Mammals: A Correlation between the Effective and Census Population Sizes.

James J, Eyre-Walker A

Genome Biol Evol 12 (12) 2441-2449 [2020-12-06; online 2020-10-24]

DDLS Fellow Jennifer James

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Microbial model communities: To understand complexity, harness the power of simplicity.

Bengtsson-Palme J

Comput Struct Biotechnol J 18 (-) 3987-4001 [2020-12-02; online 2020-12-02]

DDLS Fellow Johan Bengtsson-Palme

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Structural and functional consequences of reversible lipid asymmetry in living membranes.

Doktorova M, Symons JL, Levental I

Nat. Chem. Biol. 16 (12) 1321-1330 [2020-12-00; online 2020-11-16]

DDLS Fellow Milka Doktorova

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S100A6 is a critical regulator of hematopoietic stem cells.

Grahn THM, Niroula A, Végvári Á, ..., Zubarev RA, Karlsson S

Leukemia 34 (12) 3323-3337 [2020-12-00; online 2020-06-19]

Abhishek Niroula DDLS Fellow

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Recent advances in single-molecule fluorescence microscopy render structural biology dynamic

Bacic L, Sabantsev A, Deindl S

Current Opinion in Structural Biology 65 (-) 61-68 [2020-12-00; online 2020-12-00]

SciLifeLab Fellow Sebastian Deindl

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Identification of areas of grading difficulties in prostate cancer and comparison with artificial intelligence assisted grading.

Egevad L, Swanberg D, Delahunt B, ..., Clements M, Eklund M

Virchows Arch. 477 (6) 777-786 [2020-12-00; online 2020-06-15]

DDLS Fellow Kimmo Kartasalo

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Genome-wide detection of DNA double-strand breaks by in-suspension BLISS.

Bouwman BAM, Agostini F, Garnerone S, ..., Roukos V, Crosetto N

Nat Protoc 15 (12) 3894-3941 [2020-12-00; online 2020-11-02]

Magda Bienko SciLifeLab Fellow

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Distinct pre-initiation steps in human mitochondrial translation

Khawaja A, Itoh Y, Remes C, ..., Amunts A, Rorbach J

Nat Commun 11 (1) - [2020-12-00; online 2020-06-10]

Alexey Amunts SciLifeLab Fellow

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Calmodulin acts as a state-dependent switch to control a cardiac potassium channel opening.

Kang PW, Westerlund AM, Shi J, ..., Delemotte L, Cui J

Sci Adv 6 (50) - [2020-12-00; online 2020-12-11]

Lucie Delemotte SciLifeLab Fellow

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Analysis of translating mitoribosome reveals functional characteristics of translation in mitochondria of fungi

Itoh Y, Naschberger A, Mortezaei N, Herrmann JM, Amunts A

Nat Commun 11 (1) - [2020-12-00; online 2020-10-14]

Alexey Amunts SciLifeLab Fellow

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Universal Single-Residue Terminal Labels for Fluorescent Live Cell Imaging of Microproteins.

Lafranchi L, Schlesinger D, Kimler KJ, Elsässer SJ

Journal of the American Chemical Society 142 (47) 20080-20087 [2020-11-25; online 2020-11-11]

SciLifeLab Fellow Simon Elsässer

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Improved computational analysis of ribosome dynamics from 5′P degradome data using fivepseq

Nersisyan L, Ropat M, Pelechano V

NAR Genomics and Bioinformatics 2 (4) - [2020-11-24; online 2020-11-24]

SciLifeLab Fellow Vicent Pelechano

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Comparative interactomes of HSF1 in stress and disease reveal a role for CTCF in HSF1-mediated gene regulation.

Burchfiel ET, Vihervaara A, Guertin MJ, Gomez-Pastor R, Thiele DJ

J Biol Chem 296 (-) 100097 [2020-11-24; online 2020-11-24]

Anniina Vihervaara SciLifeLab Fellow

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Low Shear Stress Increases Recombinant Protein Production and High Shear Stress Increases Apoptosis in Human Cells.

Zhan C, Bidkhori G, Schwarz H, ..., Rockberg J, Chotteau V

iScience 23 (11) 101653 [2020-11-20; online 2020-10-07]

Adil Mardinoglu SciLifeLab Fellow

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Comparative dietary sulfated metabolome analysis reveals unknown metabolic interactions of the gut microbiome and the human host.

Correia MSP, Jain A, Alotaibi W, ..., Rodriguez-Mateos A, Globisch D

Free Radic. Biol. Med. 160 (-) 745-754 [2020-11-20; online 2020-09-11]

Daniel Globisch SciLifeLab Fellow

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Amino Acid Modified RNA Bases as Building Blocks of an Early Earth RNA-Peptide World.

Nainytė M, Müller F, Ganazzoli G, ..., Globisch D, Carell T

Chemistry 26 (65) 14856-14860 [2020-11-20; online 2020-10-14]

Daniel Globisch SciLifeLab Fellow

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Assessment of In Vitro and In Silico Protocols for Sequence-Based Characterization of the Human Vaginal Microbiome.

Hugerth LW, Pereira M, Zha Y, ..., Schuppe-Koistinen I, Engstrand L

mSphere 5 (6) - [2020-11-18; online 2020-11-18]

DDLS Fellow Luisa Hugerth

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Lipoprotein Particles Interact with Membranes and Transfer Their Cargo without Receptors

Plochberger B, Sych T, Weber F, ..., Stangl H, Sezgin E

Biochemistry 59 (45) 4421-4428 [2020-11-17; online 2020-11-04]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

The Immunology of Multisystem Inflammatory Syndrome in Children with COVID-19.

Consiglio CR, Cotugno N, Sardh F, ..., Palma P, Brodin P

Cell 183 (4) 968-981.e7 [2020-11-12; online 2020-09-06]

Camila Consiglio DDLS Fellow

PubMed DOI Crossref

DNA methylation in infants with low and high body fatness.

Henriksson P, Lentini A, Altmäe S, ..., Nestor CE, Löf M

BMC Genomics 21 (1) 769 [2020-11-09; online 2020-11-09]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Genomic Characterization of Salmonella Minnesota Clonal Lineages Associated with Poultry Production in Brazil.

Kipper D, Carroll LM, Mascitti AK, ..., Ikuta N, Lunge VR

Animals (Basel) 10 (11) - [2020-11-05; online 2020-11-05]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Novel Effective Bacillus cereus Group Species "Bacillus clarus" Is Represented by Antibiotic-Producing Strain ATCC 21929 Isolated from Soil.

Méndez Acevedo M, Carroll LM, Mukherjee M, ..., Dudley EG, Kovac J

mSphere 5 (6) - [2020-11-04; online 2020-11-04]

DDLS Fellow Laura Carroll

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Redesigning Solvatochromic Probe Laurdan for Imaging Lipid Order Selectively in Cell Plasma Membranes.

Danylchuk DI, Sezgin E, Chabert P, Klymchenko AS

Anal. Chem. 92 (21) 14798-14805 [2020-11-03; online 2020-10-12]

Erdinc Sezgin SciLifeLab Fellow

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Computational Analysis of Alzheimer Amyloid Plaque Composition in 2D- and Elastically Reconstructed 3D-MALDI MS Images.

Enzlein T, Cordes J, Munteanu B, ..., Chávez-Gutiérrez L, Hopf C

Anal. Chem. 92 (21) 14484-14493 [2020-11-03; online 2020-10-14]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Tracking the motion of the KV 1.2 voltage sensor reveals the molecular perturbations caused by a de novo mutation in a case of epilepsy.

Pantazis A, Kaneko M, Angelini M, ..., Saitta SC, Olcese R

J. Physiol. (Lond.) 598 (22) 5245-5269 [2020-11-00; online 2020-09-21]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Quantification of aromatase binding in the female human brain using [11 C]cetrozole positron emission tomography.

Jonasson M, Nordeman P, Eriksson J, ..., Lubberink M, Comasco E

J Neurosci Res 98 (11) 2208-2218 [2020-11-00; online 2020-08-06]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Perfluorooctane sulfonate (PFOS) and perfluorooctanoic acid (PFOA) induce epigenetic alterations and promote human breast cell carcinogenesis in vitro.

Pierozan P, Cattani D, Karlsson O

Arch. Toxicol. 94 (11) 3893-3906 [2020-11-00; online 2020-07-22]

Oskar Karlsson SciLifeLab Fellow

DOI Crossref

Implications for tetraspanin-enriched microdomain assembly based on structures of CD9 with EWI-F

Oosterheert W, Xenaki KT, Neviani V, ..., van Bergen en Henegouwen PM, Gros P

Life Sci. Alliance 3 (11) e202000883 [2020-11-00; online 2020-09-21]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Differences in structure and hibernation mechanism highlight diversification of the microsporidian ribosome

Ehrenbolger K, Jespersen N, Sharma H, ..., Vossbrinck CR, Barandun J

PLoS Biol. 18 (10) e3000958 [2020-10-30; online 2020-10-30]

Jonas Barandun SciLifeLab Fellow

PubMed DOI Crossref

Potential Anticancer Effect of Carvacrol Codrugs on Human Glioblastoma Cells.

Yazici A, Marinelli L, Cacciatore I, ..., Mardinoğlu A, Türkez H

Curr Drug Deliv 18 (3) 350-356 [2020-10-29; online 2020-10-29]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Fluidity and Lipid Composition of Membranes of Peroxisomes, Mitochondria and the ER From Oleic Acid-Induced Saccharomyces cerevisiae

Reglinski K, Steinfort-Effelsberg L, Sezgin E, ..., Eggeling C, Erdmann R

Front Cell Dev Biol 8 (-) 574363 [2020-10-29; online 2020-10-29]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Nuclear gene proximity and protein interactions shape transcript covariations in mammalian single cells.

Tarbier M, Mackowiak SD, Frade J, ..., Gallant CJ, Friedländer MR

Nat Commun 11 (1) 5445 [2020-10-28; online 2020-10-28]

Magda Bienko Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Hippocampal neural stem cells are more susceptible to the neurotoxin BMAA than primary neurons: effects on apoptosis, cellular differentiation, neurite outgrowth, and DNA methylation.

Pierozan P, Cattani D, Karlsson O

Cell Death Dis 11 (10) 910 [2020-10-24; online 2020-10-24]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Type III ATP synthase is a symmetry-deviated dimer that induces membrane curvature through tetramerization.

Flygaard RK, Mühleip A, Tobiasson V, Amunts A

Nat Commun 11 (1) 5342 [2020-10-22; online 2020-10-22]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Rapid Preparation of a Large Sulfated Metabolite Library for Structure Validation in Human Samples.

Correia MSP, Lin W, Aria AJ, Jain A, Globisch D

Metabolites 10 (10) 415 [2020-10-16; online 2020-10-16]

Daniel Globisch SciLifeLab Fellow

PubMed

[11C]5-Hydroxy-tryptophan model for quantitative assessment of in vivo serotonin biosynthesis, retention and degradation in the endocrine pancreas.

Lubberink M, Eriksson O

American journal of nuclear medicine and molecular imaging 10 (5) 226-234 [2020-10-15; online 2020-10-15]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Androgen Receptor Signaling Positively Regulates Monocytic Development.

Consiglio CR, Gollnick SO

Front Immunol 11 (-) 519383 [2020-10-15; online 2020-10-15]

Camila Consiglio DDLS Fellow

PubMed DOI Crossref

Network analysis reveals how lipids and other cofactors influence membrane protein allostery.

Westerlund AM, Fleetwood O, Pérez-Conesa S, Delemotte L

J Chem Phys 153 (14) 141103 [2020-10-14; online 2020-10-23]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

TIF-Seq2 disentangles overlapping isoforms in complex human transcriptomes.

Wang J, Li B, Marques S, ..., Wei W, Pelechano V

Nucleic Acids Res. 48 (18) e104 [2020-10-09; online 2020-08-21]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

An embryonic stem cell-specific heterochromatin state promotes core histone exchange in the absence of DNA accessibility.

Navarro C, Lyu J, Katsori AM, Caridha R, Elsässer SJ

Nat Commun 11 (1) 5095 [2020-10-09; online 2020-10-09]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Receptor occupancy of dual glucagon-like peptide 1/glucagon receptor agonist SAR425899 in individuals with type 2 diabetes.

Eriksson O, Haack T, Hijazi Y, ..., Wagner M, Tillner J

Sci Rep 10 (1) 16758 [2020-10-07; online 2020-10-07]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

HEARTBREAK Controls Post-translational Modification of INDEHISCENT to Regulate Fruit Morphology in Capsella.

Dong Y, Majda M, Šimura J, ..., Smith RS, Østergaard L

Curr. Biol. 30 (19) 3880-3888.e5 [2020-10-05; online 2020-08-13]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Progesterone - Friend or foe?

Sundström-Poromaa I, Comasco E, Sumner R, Luders E

Front Neuroendocrinol 59 (-) 100856 [2020-10-00; online 2020-07-28]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Male swarming aggregation pheromones increase female attraction and mating success among multiple African malaria vector mosquito species.

Mozūraitis R, Hajkazemian M, Zawada JW, ..., Borg-Karlson AK, Emami SN

Nat Ecol Evol 4 (10) 1395-1401 [2020-10-00; online 2020-08-03]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

GPSeq reveals the radial organization of chromatin in the cell nucleus.

Girelli G, Custodio J, Kallas T, ..., Crosetto N, Bienko M

Nat. Biotechnol. 38 (10) 1184-1193 [2020-10-00; online 2020-05-25]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Body composition after allogeneic haematopoietic cell transplantation/total body irradiation in children and young people: a restricted systematic review.

Lorenc A, Hamilton-Shield J, Perry R, Stevens M, CTYA HSCT Adipose and Muscle Late Effects Working Group

J Cancer Surviv 14 (5) 624-642 [2020-10-00; online 2020-07-18]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

ANHIR: Automatic Non-Rigid Histological Image Registration Challenge.

Borovec J, Kybic J, Arganda-Carreras I, ..., Zhao S, Munoz-Barrutia A

IEEE Trans Med Imaging 39 (10) 3042-3052 [2020-10-00; online 2020-04-07]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Streamlined and Abundant Bacterioplankton Thrive in Functional Cohorts.

Mondav R, Bertilsson S, Buck M, ..., Lindström ES, Garcia SL

mSystems 5 (5) - [2020-09-29; online 2020-09-29]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

Discovery of Proteolysis-Targeting Chimera Molecules that Selectively Degrade the IRAK3 Pseudokinase.

Degorce SL, Tavana O, Banks E, ..., Yang B, Edmondson SD

J Med Chem 63 (18) 10460-10473 [2020-09-24; online 2020-09-14]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

Massive and rapid COVID-19 testing is feasible by extraction-free SARS-CoV-2 RT-PCR.

Smyrlaki I, Ekman M, Lentini A, ..., Högberg B, Reinius B

Nat Commun 11 (1) 4812 [2020-09-23; online 2020-09-23]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

No Assembly Required: Using BTyper3 to Assess the Congruency of a Proposed Taxonomic Framework for the Bacillus cereus Group With Historical Typing Methods.

Carroll LM, Cheng RA, Kovac J

Front Microbiol 11 (-) 580691 [2020-09-22; online 2020-09-22]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Applications of Genome-Wide Screening and Systems Biology Approaches in Drug Repositioning.

Mohammadi E, Benfeitas R, Turkez H, ..., Uhlen M, Mardinoglu A

Cancers (Basel) 12 (9) - [2020-09-21; online 2020-09-21]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Compositional and functional differences of the mucosal microbiota along the intestine of healthy individuals.

Vaga S, Lee S, Ji B, ..., Engstrand L, Shoaie S

Sci Rep 10 (1) 14977 [2020-09-11; online 2020-09-11]

Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

Disease, Drugs and Dysbiosis: Understanding Microbial Signatures in Metabolic Disease and Medical Interventions.

Proffitt C, Bidkhori G, Moyes D, Shoaie S

Microorganisms 8 (9) 1381 [2020-09-09; online 2020-09-09]

Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

Integration of molecular profiles in a longitudinal wellness profiling cohort.

Tebani A, Gummesson A, Zhong W, ..., Uhlen M, Fagerberg L

Nat Commun 11 (1) 4487 [2020-09-08; online 2020-09-08]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

How cholesterol stiffens unsaturated lipid membranes.

Chakraborty S, Doktorova M, Molugu TR, ..., Brown MF, Ashkar R

Proc. Natl. Acad. Sci. U.S.A. 117 (36) 21896-21905 [2020-09-08; online 2020-08-25]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

The RNA exosome shapes the expression of key protein-coding genes.

Wu M, Karadoulama E, Lloret-Llinares M, ..., Jensen TH, Sandelin A

Nucleic Acids Res. 48 (15) 8509-8528 [2020-09-04; online 2020-07-28]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Genome sequence of segmented filamentous bacteria present in the human intestine.

Jonsson H, Hugerth LW, Sundh J, Lundin E, Andersson AF

Commun Biol 3 (1) 485 [2020-09-04; online 2020-09-04]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Twentieth-century emergence of antimicrobial resistant human- and bovine-associated Salmonella enterica serotype Typhimurium lineages in New York State.

Carroll LM, Huisman JS, Wiedmann M

Sci Rep 10 (1) 14428 [2020-09-02; online 2020-09-02]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Corrigendum to "Monoamine oxidase A genotype and methylation moderate the association of maltreatment and aggressive behaviour" [Behav. Brain Res. 382 (2020) 112476].

Checknita D, Bendre M, Ekström TJ, ..., Hodgins S, Nilsson KW

Behav. Brain Res. 393 (-) 112721 [2020-09-01; online 2020-06-23]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

The past and future human impact on mammalian diversity.

Andermann T, Faurby S, Turvey ST, Antonelli A, Silvestro D

Sci Adv 6 (36) - [2020-09-00; online 2020-09-04]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Systems Biology: A Multi-Omics Integration Approach to Metabolism and the Microbiome.

Son JW, Shoaie S, Lee S

Endocrinol Metab (Seoul) 35 (3) 507-514 [2020-09-00; online 2020-09-22]

Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

PhenoChip: A single-cell phenomic platform for high-throughput photophysiological analyses of microalgae.

Behrendt L, Salek MM, Trampe EL, ..., Kühl M, Stocker R

Sci Adv 6 (36) eabb2754 [2020-09-00; online 2020-09-02]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Perspectives from Ten Years of Protist Studies by High-Throughput Metabarcoding.

Santoferrara L, Burki F, Filker S, ..., Dunthorn M, McManus GB

J. Eukaryot. Microbiol. 67 (5) 612-622 [2020-09-00; online 2020-07-02]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Enzalutamide, an Androgen Receptor Antagonist, Enhances Myeloid Cell-Mediated Immune Suppression and Tumor Progression.

Consiglio CR, Udartseva O, Ramsey KD, Bush C, Gollnick SO

Cancer Immunol Res 8 (9) 1215-1227 [2020-09-00; online 2020-07-13]

Camila Consiglio DDLS Fellow

PubMed DOI Crossref

Systems-Level Immunomonitoring from Acute to Recovery Phase of Severe COVID-19.

Rodriguez L, Pekkarinen PT, Lakshmikanth T, ..., Kekäläinen E, Brodin P

Cell Rep Med 1 (5) 100078 [2020-08-25; online 2020-08-05]

Camila Consiglio DDLS Fellow

PubMed DOI Crossref

Cereulide Synthetase Acquisition and Loss Events within the Evolutionary History of Group III Bacillus cereus Sensu Lato Facilitate the Transition between Emetic and Diarrheal Foodborne Pathogens.

Carroll LM, Wiedmann M

MBio 11 (4) - [2020-08-25; online 2020-08-25]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Mapping DNA Methylation in Mammals: The State of the Art.

Lentini A, Nestor CE

Methods in molecular biology (Clifton, N.J.) 2198 (-) 37-50 [2020-08-22; online 2020-08-22]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Analyzing DNA-Immunoprecipitation Sequencing Data.

Lentini A, Nestor CE

Methods in molecular biology (Clifton, N.J.) 2198 (-) 431-439 [2020-08-22; online 2020-08-22]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Natural killer cell immunotypes related to COVID-19 disease severity.

Maucourant C, Filipovic I, Ponzetta A, ..., Björkström NK, Karolinska COVID-19 Study Group

Sci Immunol 5 (50) - [2020-08-21; online 2020-08-23]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Structural basis of mitochondrial translation.

Aibara S, Singh V, Modelska A, Amunts A

Elife 9 (-) - [2020-08-19; online 2020-08-19]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Direct label-free imaging of nanodomains in biomimetic and biological membranes by cryogenic electron microscopy.

Heberle FA, Doktorova M, Scott HL, ..., Waxham MN, Levental I

Proc. Natl. Acad. Sci. U.S.A. 117 (33) 19943-19952 [2020-08-18; online 2020-08-05]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Unexpected Acetylation of Endogenous Aliphatic Amines by Arylamine N-Acetyltransferase NAT2.

Conway LP, Rendo V, Correia MSP, ..., Sjöblom T, Globisch D

Angew. Chem. Int. Ed. Engl. 59 (34) 14342-14346 [2020-08-17; online 2020-07-08]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Drug Repositioning for P-Glycoprotein Mediated Co-Expression Networks in Colorectal Cancer.

Beklen H, Gulfidan G, Arga KY, Mardinoglu A, Turanli B

Front Oncol 10 (-) 1273 [2020-08-13; online 2020-08-13]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Transcriptional mutagenesis dramatically alters genome-wide p53 transactivation landscape.

Liang S, Ezerskyte M, Wang J, Pelechano V, Dreij K

Sci Rep 10 (1) 13513 [2020-08-11; online 2020-08-11]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Super-resolution RESOLFT microscopy of lipid bilayers using a fluorophore-switch dyad.

Frawley AT, Wycisk V, Xiong Y, ..., Eggeling C, Anderson HL

Chem Sci 11 (33) 8955-8960 [2020-08-10; online 2020-08-10]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Human RTEL1 associates with Poldip3 to facilitate responses to replication stress and R-loop resolution.

Björkman A, Johansen SL, Lin L, ..., Bartek J, Schou KB

Genes Dev. 34 (15-16) 1065-1074 [2020-08-01; online 2020-06-19]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

The cyanobacterial neurotoxin β-N-methylamino-L-alanine (BMAA) targets the olfactory bulb region.

Pierozan P, Piras E, Brittebo E, Karlsson O

Arch. Toxicol. 94 (8) 2799-2808 [2020-08-00; online 2020-05-20]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Predatory colponemids are the sister group to all other alveolates.

Tikhonenkov DV, Strassert JFH, Janouškovec J, ..., Burki F, Keeling PJ

Mol. Phylogenet. Evol. 149 (-) 106839 [2020-08-00; online 2020-04-21]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Neuroprotective effects of boron nitride nanoparticles in the experimental Parkinson's disease model against MPP+ induced apoptosis.

Küçükdoğru R, Türkez H, Arslan ME, ..., Cacciatore I, Di Stefano A

Metab Brain Dis 35 (6) 947-957 [2020-08-00; online 2020-03-25]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Interference with pancreatic sympathetic signaling halts the onset of diabetes in mice.

Christoffersson G, Ratliff SS, von Herrath MG

Sci Adv 6 (35) eabb2878 [2020-08-00; online 2020-08-26]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Human ovarian cancer intrinsic mechanisms regulate lymphocyte activation in response to immune checkpoint blockade.

Natoli M, Bonito N, Robinson JD, Ghaem-Maghami S, Mao Y

Cancer Immunol. Immunother. 69 (8) 1391-1401 [2020-08-00; online 2020-03-21]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

GPCRmd uncovers the dynamics of the 3D-GPCRome.

Rodríguez-Espigares I, Torrens-Fontanals M, Tiemann JKS, ..., Guixà-González R, Selent J

Nat. Methods 17 (8) 777-787 [2020-08-00; online 2020-07-13]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Apparent stiffness of vimentin intermediate filaments in living cells and its relation with other cytoskeletal polymers.

Smoler M, Coceano G, Testa I, Bruno L, Levi V

Biochim Biophys Acta Mol Cell Res 1867 (8) 118726 [2020-08-00; online 2020-04-19]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Automated GMP-Compliant Production of [68Ga]Ga-DO3A-Tuna-2 for PET Microdosing Studies of the Glucagon Receptor in Humans.

Wagner M, Doverfjord JG, Tillner J, ..., Eriksson O, Velikyan I

Pharmaceuticals (Basel, Switzerland) 13 (8) 176 [2020-07-31; online 2020-07-31]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Current Status of COVID-19 Therapies and Drug Repositioning Applications.

Altay O, Mohammadi E, Lam S, ..., Uhlen M, Mardinoglu A

iScience 23 (7) 101303 [2020-07-24; online 2020-06-20]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Systems Biology Approaches to Understand the Host-Microbiome Interactions in Neurodegenerative Diseases.

Rosario D, Boren J, Uhlen M, ..., Mardinoglu A, Shoaie S

Front Neurosci 14 (-) 716 [2020-07-08; online 2020-07-08]

Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

Pulsed Electric Fields Can Create Pores in the Voltage Sensors of Voltage-Gated Ion Channels.

Rems L, Kasimova MA, Testa I, Delemotte L

Biophys. J. 119 (1) 190-205 [2020-07-07; online 2020-06-08]

Ilaria Testa Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Rapid Detection of COVID-19 Coronavirus Using a Reverse Transcriptional Loop-Mediated Isothermal Amplification (RT-LAMP) Diagnostic Platform.

Yu L, Wu S, Hao X, ..., Chen WH, Yin X

Clin. Chem. 66 (7) 975-977 [2020-07-01; online 2020-04-22]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Quo vadis microRNAs?

Fromm B, Keller A, Yang X, ..., Peterson KJ, Griffiths-Jones S

Trends in Genetics 36 (7) 461-463 [2020-07-00; online 2020-04-16]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Influenza A viruses use multivalent sialic acid clusters for cell binding and receptor activation.

Sieben C, Sezgin E, Eggeling C, Manley S

PLoS Pathog 16 (7) e1008656 [2020-07-00; online 2020-07-08]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

DNA surface exploration and operator bypassing during target search.

Marklund E, van Oosten B, Mao G, ..., Elf J, Deindl S

Nature 583 (7818) 858-861 [2020-07-00; online 2020-06-24]

Daniel Globisch Emil Marklund SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Comparative genomics reveals different population structures associated with host and geographic origin in antimicrobial-resistant Salmonella enterica.

Liao J, Orsi RH, Carroll LM, Wiedmann M

Environ. Microbiol. 22 (7) 2811-2828 [2020-07-00; online 2020-04-27]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

A systems biology approach for studying neurodegenerative diseases.

Lam S, Bayraktar A, Zhang C, ..., Uhlen M, Mardinoglu A

Drug Discov. Today 25 (7) 1146-1159 [2020-07-00; online 2020-05-19]

Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

Molecular Structure of Sphingomyelin in Fluid Phase Bilayers Determined by the Joint Analysis of Small-Angle Neutron and X-ray Scattering Data.

Doktorova M, Kučerka N, Kinnun JJ, ..., Katsaras J, Heberle FA

J Phys Chem B 124 (25) 5186-5200 [2020-06-25; online 2020-06-16]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Skeletal Muscle Transcriptomic Comparison between Long-Term Trained and Untrained Men and Women.

Chapman MA, Arif M, Emanuelsson EB, ..., Mardinoglu A, Sundberg CJ

Cell Reports 31 (12) 107808 [2020-06-23; online 2020-06-25]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Site-Specific Incorporation of Two ncAAs for Two-Color Bioorthogonal Labeling and Crosslinking of Proteins on Live Mammalian Cells.

Meineke B, Heimgärtner J, Eirich J, Landreh M, Elsässer SJ

Cell Reports 31 (12) 107811 [2020-06-23; online 2020-06-25]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Successful delivery of large-size CRISPR/Cas9 vectors in hard-to-transfect human cells using small plasmids.

Søndergaard JN, Geng K, Sommerauer C, ..., Yin X, Kutter C

Commun Biol 3 (1) 319 [2020-06-19; online 2020-06-19]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Adipose tissue morphology, imaging and metabolomics predicting cardiometabolic risk and family history of type 2 diabetes in non-obese men.

Rawshani A, Eliasson B, Rawshani A, ..., Rosengren A, Smith U

Sci Rep 10 (1) 9973 [2020-06-19; online 2020-06-19]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Ciliate mitoribosome illuminates evolutionary steps of mitochondrial translation.

Tobiasson V, Amunts A

Elife 9 (-) e59264 [2020-06-18; online 2020-06-18]

Alexey Amunts SciLifeLab Fellow

DOI Crossref

Chaining with Overlaps Revisited

Sahlin K, Mäkinen V

31st Annual Symposium on Combinatorial Pattern Matching (CPM 2020) 161 (-) 25:1--25:12 [2020-06-09; online 2020-06-09]

Kristoffer Sahlin SciLifeLab Fellow

PubMed DOI Crossref

Sensitive mass spectrometric analysis of carbonyl metabolites in human urine and fecal samples using chemoselective modification.

Lin W, Conway LP, Block A, ..., Löhr JM, Globisch D

Analyst 145 (11) 3822-3831 [2020-06-07; online 2020-05-12]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Plasma membranes are asymmetric in lipid unsaturation, packing and protein shape.

Lorent JH, Levental KR, Ganesan L, ..., Lyman E, Levental I

Nat. Chem. Biol. 16 (6) 644-652 [2020-06-00; online 2020-05-04]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

No distinct microbiome signature of irritable bowel syndrome found in a Swedish random population.

Hugerth LW, Andreasson A, Talley NJ, ..., Agreus L, Engstrand L

Gut 69 (6) 1076-1084 [2020-06-00; online 2019-10-10]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Improvement in the Current Therapies for Hepatocellular Carcinoma Using a Systems Medicine Approach.

Ozcan M, Altay O, Lam S, ..., Boren J, Mardinoglu A

Adv Biosyst 4 (6) e2000030 [2020-06-00; online 2020-04-08]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Germ-free and microbiota-associated mice yield small intestinal epithelial organoids with equivalent and robust transcriptome/proteome expression phenotypes.

Hausmann A, Russo G, Grossmann J, ..., Sellin ME, Hardt WD

Cell. Microbiol. 22 (6) e13191 [2020-06-00; online 2020-03-04]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Dose and time effects of solar-simulated ultraviolet radiation on the in vivo human skin transcriptome.

Bustamante M, Hernandez-Ferrer C, Tewari A, ..., Nieuwenhuijsen M, Young AR

Br. J. Dermatol. 182 (6) 1458-1468 [2020-06-00; online 2019-11-27]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Intrinsic Dissolution Rate Profiling of Poorly Water-Soluble Compounds in Biorelevant Dissolution Media.

Teleki A, Nylander O, Bergström CAS

Pharmaceutics 12 (6) 493 [2020-05-28; online 2020-05-28]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

Shift in ecological strategy helps marginal populations of shepherd's purse (Capsella bursa-pastoris) to overcome a high genetic load.

Orsucci M, Milesi P, Hansen J, ..., Glémin S, Lascoux M

Proc. Biol. Sci. 287 (1927) 20200463 [2020-05-27; online 2020-05-20]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Transcript isoform sequencing reveals widespread promoter-proximal transcriptional termination in Arabidopsis.

Thomas QA, Ard R, Liu J, ..., Pelechano V, Marquardt S

Nat Commun 11 (1) 2589 [2020-05-22; online 2020-05-22]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Integrating the "Immunome" in the Stratification of Myelodysplastic Syndromes and Future Clinical Trial Design.

Winter S, Shoaie S, Kordasti S, Platzbecker U

J Clin Oncol 38 (15) 1723-1735 [2020-05-20; online 2020-02-14]

Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

z-STED Imaging and Spectroscopy to Investigate Nanoscale Membrane Structure and Dynamics.

Barbotin A, Urbančič I, Galiani S, ..., Booth M, Sezgin E

Biophys. J. 118 (10) 2448-2457 [2020-05-19; online 2020-04-16]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Quantitative analysis of amino acid metabolism in liver cancer links glutamate excretion to nucleotide synthesis.

Nilsson A, Haanstra JR, Engqvist M, ..., Teusink B, Nielsen J

Proc. Natl. Acad. Sci. U.S.A. 117 (19) 10294-10304 [2020-05-12; online 2020-04-27]

Avlant Nilsson DDLS Fellow

PubMed DOI Crossref

Histidyl-Proline Diketopiperazine Isomers as Multipotent Anti-Alzheimer Drug Candidates.

Turkez H, Cacciatore I, Arslan ME, ..., Di Stefano A, Mardinoglu A

Biomolecules 10 (5) 737 [2020-05-09; online 2020-05-09]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Predicting resolution and image quality in RESOLFT and other point scanning microscopes [Invited].

Bodén A, Casas Moreno X, Cooper BK, York AG, Testa I

Biomed Opt Express 11 (5) 2313-2327 [2020-05-01; online 2020-04-02]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Differential Expression of Immune Genes between Two Closely Related Beetle Species with Different Immunocompetence following Attack by Asecodes parviclava.

Yang X, Fors L, Slotte T, ..., Wheat CW, Hambäck PA

Genome Biol Evol 12 (5) 522-534 [2020-05-01; online 2020-04-14]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

The utility of artificial intelligence in the assessment of prostate pathology.

Egevad L, Ström P, Kartasalo K, ..., Delahunt B, Eklund M

Histopathology 76 (6) 790-792 [2020-05-00; online 2020-05-14]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Salmonella Typhimurium discreet-invasion of the murine gut absorptive epithelium.

Fattinger SA, Böck D, Di Martino ML, ..., Hardt WD, Sellin ME

PLoS Pathog 16 (5) e1008503 [2020-05-00; online 2020-05-04]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Intestinal epithelial NAIP/NLRC4 restricts systemic dissemination of the adapted pathogen Salmonella Typhimurium due to site-specific bacterial PAMP expression.

Hausmann A, Böck D, Geiser P, ..., Sellin ME, Hardt WD

Mucosal Immunol 13 (3) 530-544 [2020-05-00; online 2020-01-17]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Genome-Scale Metabolic Modeling of Glioblastoma Reveals Promising Targets for Drug Development.

Larsson I, Uhlén M, Zhang C, Mardinoglu A

Front Genet 11 (-) 381 [2020-04-17; online 2020-04-17]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

High photon count rates improve the quality of super-resolution fluorescence fluctuation spectroscopy.

Schneider F, Hernandez-Varas P, Christoffer Lagerholm B, ..., Eggeling C, Urbančič I

J. Phys. D: Appl. Phys. 53 (16) 164003 [2020-04-15; online 2020-02-13]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

The European Research Network on Signal Transduction (ERNEST): Toward a Multidimensional Holistic Understanding of G Protein-Coupled Receptor Signaling.

Sommer ME, Selent J, Carlsson J, ..., Waldhoer M, Kolb P

ACS pharmacology & translational science 3 (2) 361-370 [2020-04-10; online 2020-03-31]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

The in vitro cytotoxic, genotoxic, and oxidative damage potentials of the oral artificial sweetener aspartame on cultured human blood cells

Çadirci K, Özdemir Tozlu Ö, Türkez H, Mardinoğlu A

Turk J Med Sci 50 (2) 448-454 [2020-04-09; online 2020-04-09]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Pooled CRISPRi screening of the cyanobacterium Synechocystis sp PCC 6803 for enhanced industrial phenotypes.

Yao L, Shabestary K, Björk SM, ..., Jahn M, Hudson EP

Nat Commun 11 (1) 1666 [2020-04-03; online 2020-04-03]

Paul Hudson SciLifeLab Fellow

PubMed DOI Crossref

The acute effect of metabolic cofactor supplementation: a potential therapeutic strategy against non-alcoholic fatty liver disease.

Zhang C, Bjornson E, Arif M, ..., Borén J, Mardinoglu A

Mol Syst Biol 16 (4) e9495 [2020-04-00; online 2020-04-28]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Neuroimaging premenstrual dysphoric disorder: A systematic and critical review.

Dubol M, Epperson CN, Lanzenberger R, Sundström-Poromaa I, Comasco E

Front Neuroendocrinol 57 (-) 100838 [2020-04-00; online 2020-04-05]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

De Novo Clustering of Long-Read Transcriptome Data Using a Greedy, Quality Value-Based Algorithm.

Sahlin K, Medvedev P

J. Comput. Biol. 27 (4) 472-484 [2020-04-00; online 2020-03-16]

Kristoffer Sahlin SciLifeLab Fellow

PubMed DOI Crossref

An adipocyte-specific defect in oxidative phosphorylation increases systemic energy expenditure and protects against diet-induced obesity in mouse models.

Choi MJ, Jung SB, Lee SE, ..., Yi HS, Shong M

Diabetologia 63 (4) 837-852 [2020-04-00; online 2020-01-10]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

An atlas of human metabolism.

Robinson JL, Kocabaş P, Wang H, ..., Uhlén M, Nielsen J

Sci Signal 13 (624) eaaz1482 [2020-03-24; online 2020-03-24]

Adil Mardinoglu Avlant Nilsson SciLifeLab Fellow

PubMed DOI Crossref

Monoamine oxidase A genotype and methylation moderate the association of maltreatment and aggressive behaviour.

Checknita D, Bendre M, Ekström TJ, ..., Hodgins S, Nilsson KW

Behav. Brain Res. 382 (-) 112476 [2020-03-16; online 2020-01-10]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Identification of germline variants in adults with hemophagocytic lymphohistiocytosis.

Miller PG, Niroula A, Ceremsak JJ, ..., Berliner N, Ebert BL

Blood Adv 4 (5) 925-929 [2020-03-10; online 2020-03-10]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

An atlas of the protein-coding genes in the human, pig, and mouse brain.

Sjöstedt E, Zhong W, Fagerberg L, ..., Uhlén M, Mulder J

Science (New York, N.Y.) 367 (6482) eaay5947 [2020-03-06; online 2020-03-07]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Stressful Beginnings with Long-Term Consequences.

Consiglio CR, Brodin P

Cell 180 (5) 820-821 [2020-03-05; online 2020-03-07]

Camila Consiglio DDLS Fellow

PubMed DOI Crossref

Membrane lipids are both the substrates and a mechanistically responsive environment of TMEM16 scramblase proteins.

Khelashvili G, Cheng X, Falzone ME, ..., Accardi A, Weinstein H

J Comput Chem 41 (6) 538-551 [2020-03-05; online 2019-11-21]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Structure of a minimal photosystem I from the green alga Dunaliella salina.

Perez-Boerema A, Klaiman D, Caspy I, ..., Amunts A, Nelson N

Nat Plants 6 (3) 321-327 [2020-03-00; online 2020-03-02]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Performance of virtual screening against GPCR homology models: Impact of template selection and treatment of binding site plasticity.

Jaiteh M, Rodríguez-Espigares I, Selent J, Carlsson J

PLoS Comput Biol 16 (3) e1007680 [2020-03-00; online 2020-03-13]

Jens Carlsson SciLifeLab Fellow

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No evidence for DNA N 6-methyladenine in mammals.

Douvlataniotis K, Bensberg M, Lentini A, Gylemo B, Nestor CE

Sci Adv 6 (12) eaay3335 [2020-03-00; online 2020-03-18]

Antonio Lentini DDLS Fellow

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MEMOTE for standardized genome-scale metabolic model testing.

Lieven C, Beber ME, Olivier BG, ..., Zakhartsev M, Zhang C

Nat. Biotechnol. 38 (3) 272-276 [2020-03-00; online 2020-03-04]

Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow

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Long-read metabarcoding of the eukaryotic rDNA operon to phylogenetically and taxonomically resolve environmental diversity.

Jamy M, Foster R, Barbera P, ..., Bass D, Burki F

Mol Ecol Resour 20 (2) 429-443 [2020-03-00; online 2019-11-29]

Fabien Burki SciLifeLab Fellow

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Life in the dark: far-red absorbing cyanobacteria extend photic zones deep into terrestrial caves.

Behrendt L, Trampe EL, Nord NB, ..., Hershey OS, Barton H

Environ. Microbiol. 22 (3) 952-963 [2020-03-00; online 2019-09-09]

Lars Behrendt SciLifeLab Fellow

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Distinct structural modulation of photosystem I and lipid environment stabilizes its tetrameric assembly.

Chen M, Perez-Boerema A, Zhang L, ..., Li S, Amunts A

Nat Plants 6 (3) 314-320 [2020-03-00; online 2020-03-09]

Alexey Amunts SciLifeLab Fellow

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Chemical imaging of evolving amyloid plaque pathology and associated Aβ peptide aggregation in a transgenic mouse model of Alzheimer's disease.

Michno W, Wehrli P, Meier SR, ..., Blennow K, Hanrieder J

J. Neurochem. 152 (5) 602-616 [2020-03-00; online 2019-11-06]

SciLifeLab Fellow Wojciech Michno

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Impact of Nanoscale Hindrances on the Relationship between Lipid Packing and Diffusion in Model Membranes.

Beckers D, Urbancic D, Sezgin E

J Phys Chem B 124 (8) 1487-1494 [2020-02-27; online 2020-02-18]

Erdinc Sezgin SciLifeLab Fellow

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A comprehensive analysis of coding and non-coding transcriptomic changes in cutaneous squamous cell carcinoma.

Das Mahapatra K, Pasquali L, Søndergaard JN, ..., Kristensen LS, Pivarcsi A

Sci Rep 10 (1) 3637 [2020-02-27; online 2020-02-27]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Proposal of a Taxonomic Nomenclature for the Bacillus cereus Group Which Reconciles Genomic Definitions of Bacterial Species with Clinical and Industrial Phenotypes.

Carroll LM, Wiedmann M, Kovac J

MBio 11 (1) - [2020-02-25; online 2020-02-25]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Energy Landscapes Reveal Agonist Control of G Protein-Coupled Receptor Activation via Microswitches.

Fleetwood O, Matricon P, Carlsson J, Delemotte L

Biochemistry 59 (7) 880-891 [2020-02-25; online 2020-02-07]

Jens Carlsson Lucie Delemotte SciLifeLab Fellow

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A Guide to Carrying Out a Phylogenomic Target Sequence Capture Project.

Andermann T, Torres Jiménez MF, Matos-Maraví P, ..., Bacon CD, Antonelli A

Front Genet 10 (-) 1407 [2020-02-21; online 2020-02-21]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Creating Supported Plasma Membrane Bilayers Using Acoustic Pressure.

Sezgin E, Carugo D, Levental I, Stride E, Eggeling C

Membranes (Basel) 10 (2) 30 [2020-02-18; online 2020-02-18]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Biophysical Characterization of Epigallocatechin-3-Gallate Effect on the Cardiac Sodium Channel Nav1.5.

Amarouch MY, Kurt H, Delemotte L, Abriel H

Molecules 25 (4) 902 [2020-02-18; online 2020-02-18]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Radial Organization in the Mammalian Nucleus.

Crosetto N, Bienko M

Front Genet 11 (-) 33 [2020-02-12; online 2020-02-12]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Regulation of lipid saturation without sensing membrane fluidity.

Ballweg S, Sezgin E, Doktorova M, ..., Hummer G, Ernst R

Nat Commun 11 (1) 756 [2020-02-06; online 2020-02-06]

DDLS Fellow Erdinc Sezgin Milka Doktorova SciLifeLab Fellow

PubMed DOI Crossref

Molecular Insights from Conformational Ensembles via Machine Learning.

Fleetwood O, Kasimova MA, Westerlund AM, Delemotte L

Biophys. J. 118 (3) 765-780 [2020-02-04; online 2019-12-21]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Abundance and diversity of resistomes differ between healthy human oral cavities and gut.

Carr VR, Witherden EA, Lee S, ..., Gomez-Cabrero D, Moyes DL

Nat Commun 11 (1) 693 [2020-02-04; online 2020-02-04]

Saeed Shoaie SciLifeLab Fellow

PubMed DOI Crossref

Unification of miRNA and isomiR research: the mirGFF3 format and the mirtop API.

Desvignes T, Loher P, Eilbeck K, ..., Halushka MK, Pantano L

Bioinformatics 36 (3) 698-703 [2020-02-01; online 2019-09-11]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

The molecular basis for sugar import in malaria parasites.

Qureshi AA, Suades A, Matsuoka R, ..., Delemotte L, Drew D

Nature 578 (7794) 321-325 [2020-02-00; online 2020-01-29]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Selective sweeps on novel and introgressed variation shape mimicry loci in a butterfly adaptive radiation.

Moest M, Van Belleghem SM, James JE, ..., Steiner FM, Jiggins CD

PLoS Biol. 18 (2) e3000597 [2020-02-00; online 2020-02-06]

DDLS Fellow Jennifer James

PubMed DOI Crossref

Handling ties in continuous outcomes for confounder adjustment with rank-ordered logit and its application to ordinal outcomes.

Ning Y, Tan CS, Maraki A, ..., Reilly M, Støer NC

Stat Methods Med Res 29 (2) 437-454 [2020-02-00; online 2019-04-03]

Erika Comasco SciLifeLab Fellow

DOI Crossref

Environmental impacts and limitations of third‐generation biobutanol: Life cycle assessment of n ‐butanol produced by genetically engineered cyanobacteria

Nilsson A, Shabestary K, Brandão M, Hudson EP

Journal of Industrial Ecology 24 (1) 205-216 [2020-02-00; online 2019-04-00]

Paul Hudson SciLifeLab Fellow

PubMed DOI Crossref

Classification of clear cell renal cell carcinoma based on PKM alternative splicing.

Li X, Turanli B, Juszczak K, ..., Zhang C, Mardinoglu A

Heliyon 6 (2) e03440 [2020-02-00; online 2020-02-19]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Artificial intelligence for diagnosis and grading of prostate cancer in biopsies: a population-based, diagnostic study.

Ström P, Kartasalo K, Olsson H, ..., Egevad L, Eklund M

Lancet Oncol 21 (2) 222-232 [2020-02-00; online 2020-01-08]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Phylogenomics and biogeography of the world's thrushes (Aves, Turdus): new evidence for a more parsimonious evolutionary history.

Batista R, Olsson U, Andermann T, ..., Ribas CC, Antonelli A

Proc. Biol. Sci. 287 (1919) 20192400 [2020-01-29; online 2020-01-22]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Boosting Natural Killer Cell-Mediated Targeting of Sarcoma Through DNAM-1 and NKG2D.

Sayitoglu EC, Georgoudaki AM, Chrobok M, ..., Sutlu T, Duru AD

Front Immunol 11 (-) 40 [2020-01-28; online 2020-01-28]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Population Genomics of Transitions to Selfing in Brassicaceae Model Systems.

Mattila TM, Laenen B, Slotte T

Methods in molecular biology (Clifton, N.J.) 2090 (-) 269-287 [2020-01-25; online 2020-01-25]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Docking Finds GPCR Ligands in Dark Chemical Matter.

Ballante F, Rudling A, Zeifman A, ..., Loza MI, Carlsson J

J Med Chem 63 (2) 613-620 [2020-01-23; online 2020-01-13]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Paenibacillus odorifer, the Predominant Paenibacillus Species Isolated from Milk in the United States, Demonstrates Genetic and Phenotypic Conservation of Psychrotolerance but Clade-Associated Differences in Nitrogen Metabolic Pathways.

Beno SM, Cheng RA, Orsi RH, ..., Martin NH, Wiedmann M

mSphere 5 (1) - [2020-01-22; online 2020-01-22]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

On the Long and Winding Road to a Perfect Membrane Model.

Doktorova M

Biophys. J. 118 (2) 273-275 [2020-01-21; online 2019-11-28]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Evidence of altered mucosa-associated and fecal microbiota composition in patients with Irritable Bowel Syndrome.

Sundin J, Aziz I, Nordlander S, ..., Simrén M, Öhman L

Sci Rep 10 (1) 593 [2020-01-17; online 2020-01-17]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Novel anti-Alzheimer phenol-lipoyl hybrids: Synthesis, physico-chemical characterization, and biological evaluation.

Pagoni A, Marinelli L, Di Stefano A, ..., Vassiliou S, Cacciatore I

Eur J Med Chem 186 (-) 111880 [2020-01-15; online 2019-11-12]

Adil Mardinoglu SciLifeLab Fellow

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A set of monomeric near-infrared fluorescent proteins for multicolor imaging across scales.

Matlashov ME, Shcherbakova DM, Alvelid J, ..., Testa I, Verkhusha VV

Nat Commun 11 (1) 239 [2020-01-13; online 2020-01-13]

Ilaria Testa SciLifeLab Fellow

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Stable stimulated emission depletion imaging of extended sample regions

Alvelid J, Testa I

J. Phys. D: Appl. Phys. 53 (2) 024001 [2020-01-09; online 2019-10-25]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

MirGeneDB 2.0: the metazoan microRNA complement.

Fromm B, Domanska D, Høye E, ..., Friedländer MR, Peterson KJ

Nucleic Acids Res. 48 (D1) D1172 [2020-01-08; online 2019-10-24]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

The GenTree Dendroecological Collection, tree-ring and wood density data from seven tree species across Europe.

Martínez-Sancho E, Slámová L, Morganti S, ..., Westin J, Fonti P

Sci Data 7 (1) 1 [2020-01-02; online 2020-01-02]

Pascal Milesi SciLifeLab Fellow

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Protein aggregation in bacteria.

Schramm FD, Schroeder K, Jonas K

FEMS Microbiol Rev 44 (1) 54-72 [2020-01-01; online 2019-10-22]

Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

Advances in GLP-1 receptor targeting radiolabeled agent development and prospective of theranostics.

Velikyan I, Eriksson O

Theranostics 10 (1) 437-461 [2020-01-01; online 2020-01-01]

Olof Eriksson SciLifeLab Fellow

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The New Tree of Eukaryotes.

Burki F, Roger AJ, Brown MW, Simpson AGB

Trends in Ecology & Evolution 35 (1) 43-55 [2020-01-00; online 2019-10-09]

Fabien Burki SciLifeLab Fellow

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Ontogenic succession of thermokarst thaw ponds is linked to dissolved organic matter quality and microbial degradation potential

Peura S, Wauthy M, Simone D, ..., Rautio M, Bertilsson S

Limnol. Oceanogr. 65 (S1) - [2020-01-00; online 2020-01-00]

Sari Peura SciLifeLab Fellow

DOI Crossref

Non‐cyanobacterial diazotrophs dominate nitrogen‐fixing communities in permafrost thaw ponds

Fernandez L, Bertilsson S, Peura S

Limnol. Oceanogr. 65 (S1) - [2020-01-00; online 2020-01-00]

Sari Peura SciLifeLab Fellow

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Chapter 7. Bridging the Gap Between Atomistic Molecular Dynamics Simulations and Wet-lab Experimental Techniques: Applications to Membrane Proteins

Delemotte L

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Lucie Delemotte SciLifeLab Fellow

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A genome-wide transcriptomic analysis of protein-coding genes in human blood cells.

Uhlen M, Karlsson MJ, Zhong W, ..., Fagerberg L, Brodin P

Science (New York, N.Y.) 366 (6472) eaax9198 [2019-12-20; online 2019-12-21]

Adil Mardinoglu SciLifeLab Fellow

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High genetic diversity but no geographical structure of Aedes albopictus populations in Réunion Island.

Latreille AC, Milesi P, Magalon H, Mavingui P, Atyame CM

Parasit Vectors 12 (1) 597 [2019-12-19; online 2019-12-19]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

MPRAscore: robust and non-parametric analysis of massively parallel reporter assays.

Niroula A, Ajore R, Nilsson B

Bioinformatics 35 (24) 5351-5353 [2019-12-15; online 2019-07-31]

Abhishek Niroula DDLS Fellow

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A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart.

Asp M, Giacomello S, Larsson L, ..., Sylvén C, Lundeberg J

Cell 179 (7) 1647-1660.e19 [2019-12-12; online 2019-12-14]

Magda Bienko SciLifeLab Fellow

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InfleCS: Clustering Free Energy Landscapes with Gaussian Mixtures.

Westerlund AM, Delemotte L

J Chem Theory Comput 15 (12) 6752-6759 [2019-12-10; online 2019-11-07]

Lucie Delemotte SciLifeLab Fellow

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Overeating Saturated Fat Promotes Fatty Liver and Ceramides Compared With Polyunsaturated Fat: A Randomized Trial.

Rosqvist F, Kullberg J, Ståhlman M, ..., Ahlström H, Risérus U

J. Clin. Endocrinol. Metab. 104 (12) 6207-6219 [2019-12-01; online 2019-08-02]

Olof Eriksson SciLifeLab Fellow

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Nascent RNA analyses: tracking transcription and its regulation.

Wissink EM, Vihervaara A, Tippens ND, Lis JT

Nat. Rev. Genet. 20 (12) 705-723 [2019-12-00; online 2019-08-09]

Anniina Vihervaara SciLifeLab Fellow

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Fluorescence microscopy at the molecular scale

Alvelid J, Testa I

Current Opinion in Biomedical Engineering 12 (-) 34-42 [2019-12-00; online 2019-12-00]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Enrichment of oral microbiota in early cystic precursors to invasive pancreatic cancer.

Gaiser RA, Halimi A, Alkharaan H, ..., Del Chiaro M, Sällberg Chen M

Gut 68 (12) 2186-2194 [2019-12-00; online 2019-03-14]

DDLS Fellow Luisa Hugerth

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Chromatin-sensitive cryptic promoters putatively drive expression of alternative protein isoforms in yeast.

Wei W, Hennig BP, Wang J, ..., Steinmetz LM, Pelechano V

Genome Res 29 (12) 1974-1984 [2019-12-00; online 2019-11-18]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Cardiac expression of the microsomal triglyceride transport protein protects the heart function during ischemia.

Klevstig M, Arif M, Mannila M, ..., Ehrenborg E, Borén J

J. Mol. Cell. Cardiol. 137 (-) 1-8 [2019-12-00; online 2019-09-15]

Adil Mardinoglu SciLifeLab Fellow

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Assessing the potential for assisted gene flow using past introduction of Norway spruce in southern Sweden: Local adaptation and genetic basis of quantitative traits in trees.

Milesi P, Berlin M, Chen J, ..., Karlsson B, Lascoux M

Evol Appl 12 (10) 1946-1959 [2019-12-00; online 2019-08-22]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Helix breaking transition in the S4 of HCN channel is critical for hyperpolarization-dependent gating.

Kasimova MA, Tewari D, Cowgill JB, ..., Delemotte L, Chanda B

Elife 8 (-) - [2019-11-27; online 2019-11-27]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

The human secretome.

Uhlén M, Karlsson MJ, Hober A, ..., Fagerberg L, Sivertsson Å

Sci Signal 12 (609) eaaz0274 [2019-11-26; online 2019-11-26]

Adil Mardinoglu SciLifeLab Fellow

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Evolutionary Refinement of DNA Nanostructures Using Coarse-Grained Molecular Dynamics Simulations.

Benson E, Lolaico M, Tarasov Y, Gådin A, Högberg B

ACS Nano 13 (11) 12591-12598 [2019-11-26; online 2019-10-15]

Erik Benson SciLifeLab Fellow

PubMed DOI Crossref

Effects of sampling strategy and DNA extraction on human skin microbiome investigations.

Bjerre RD, Hugerth LW, Boulund F, ..., Johansen JD, Engstrand L

Sci Rep 9 (1) 17287 [2019-11-21; online 2019-11-21]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Metabolically Active Brown Adipose Tissue Is Found in Adult Subjects with Type 1 Diabetes.

Eriksson O, Selvaraju RK, Berglund M, Espes D

Int J Mol Sci 20 (23) 5827 [2019-11-20; online 2019-11-20]

Olof Eriksson SciLifeLab Fellow

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Structure of a mitochondrial ATP synthase with bound native cardiolipin.

Mühleip A, McComas SE, Amunts A

Elife 8 (-) - [2019-11-18; online 2019-11-18]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

More Favorable Palmitic Acid Over Palmitoleic Acid Modification of Wnt3 Ensures Its Localization and Activity in Plasma Membrane Domains.

Azbazdar Y, Ozalp O, Sezgin E, ..., Karaca E, Ozhan G

Front Cell Dev Biol 7 (-) 281 [2019-11-15; online 2019-11-15]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Complex I is bypassed during high intensity exercise.

Nilsson A, Björnson E, Flockhart M, Larsen FJ, Nielsen J

Nat Commun 10 (1) 5072 [2019-11-07; online 2019-11-07]

Avlant Nilsson DDLS Fellow

PubMed DOI Crossref

ProTstab - predictor for cellular protein stability.

Yang Y, Ding X, Zhu G, ..., Lv Q, Vihinen M

BMC Genomics 20 (1) 804 [2019-11-04; online 2019-11-04]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Systems biology perspective for studying the gut microbiota in human physiology and liver diseases.

Altay O, Nielsen J, Uhlen M, Boren J, Mardinoglu A

EBioMedicine 49 (-) 364-373 [2019-11-00; online 2019-10-18]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Molecular imaging mass spectrometry for probing protein dynamics in neurodegenerative disease pathology.

Michno W, Wehrli PM, Blennow K, Zetterberg H, Hanrieder J

J. Neurochem. 151 (4) 488-506 [2019-11-00; online 2018-11-06]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Evolutionary compaction and adaptation visualized by the structure of the dormant microsporidian ribosome.

Barandun J, Hunziker M, Vossbrinck CR, Klinge S

Nat. Microbiol 4 (11) 1798-1804 [2019-11-00; online 2019-07-22]

Jonas Barandun SciLifeLab Fellow

PubMed DOI Crossref

Chemometric Strategies for Sensitive Annotation and Validation of Anatomical Regions of Interest in Complex Imaging Mass Spectrometry Data.

Wehrli PM, Michno W, Blennow K, Zetterberg H, Hanrieder J

J. Am. Soc. Mass Spectrom. 30 (11) 2278-2288 [2019-11-00; online 2019-09-16]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Association of PTHrP levels in CSF with Alzheimer's disease biomarkers.

Kushnir MM, Michno W, Rockwood AL, ..., Strathmann FG, Hanrieder J

Clin Mass Spectrom 14 Pt B (-) 124-129 [2019-11-00; online 2018-10-09]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Sharing Data from Molecular Simulations.

Abraham M, Apostolov R, Barnoud J, ..., Woods C, Zhmurov A

J Chem Inf Model 59 (10) 4093-4099 [2019-10-28; online 2019-10-11]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

The importance of study design in the application of artificial intelligence methods in medicine.

Eklund M, Kartasalo K, Olsson H, Ström P

NPJ Digit Med 2 (-) 101 [2019-10-18; online 2019-10-18]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

CUTseq is a versatile method for preparing multiplexed DNA sequencing libraries from low-input samples.

Zhang X, Garnerone S, Simonetti M, ..., Bienko M, Crosetto N

Nat Commun 10 (1) 4732 [2019-10-18; online 2019-10-18]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Assessment of glucagon receptor occupancy by Positron Emission Tomography in non-human primates.

Eriksson O, Velikyan I, Haack T, ..., Pierrou S, Wagner M

Sci Rep 9 (1) 14960 [2019-10-18; online 2019-10-18]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Dual Bioorthogonal Labeling of the Amyloid-β Protein Precursor Facilitates Simultaneous Visualization of the Protein and Its Cleavage Products.

van Husen LS, Schedin-Weiss S, Trung MN, ..., Elsässer SJ, Tjernberg LO

J. Alzheimers Dis. 72 (2) 537-548 [2019-10-15; online 2019-10-15]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Characterization of transgenic mouse models targeting neuromodulatory systems reveals organizational principles of the dorsal raphe.

Cardozo Pinto DF, Yang H, Pollak Dorocic I, ..., Smidt MP, Lammel S

Nat Commun 10 (1) 4633 [2019-10-11; online 2019-10-11]

Iskra Pollak Dorocic SciLifeLab Fellow

PubMed DOI Crossref

Remodeling the genome with DNA twists.

Bowman GD, Deindl S

Science (New York, N.Y.) 366 (6461) 35-36 [2019-10-04; online 2019-10-12]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Industrial wastewater treatment plant enriches antibiotic resistance genes and alters the structure of microbial communities.

Bengtsson-Palme J, Milakovic M, Švecová H, ..., Grabic R, Udikovic-Kolic N

Water Res 162 (-) 437-445 [2019-10-01; online 2019-07-04]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

VGLUT2 rs2290045 genotype moderates environmental sensitivity to alcohol-related problems in three samples of youths.

Vrettou M, Nilsson KW, Tuvblad C, ..., Nylander I, Comasco E

Eur Child Adolesc Psychiatry 28 (10) 1329-1340 [2019-10-00; online 2019-02-25]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Pancreatic perfusion and its response to glucose as measured by simultaneous PET/MRI.

Espes D, Manell E, Rydén A, ..., Jansson L, Eriksson O

Acta diabetologica 56 (10) 1113-1120 [2019-10-00; online 2019-04-26]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

High-definition spatial transcriptomics for in situ tissue profiling.

Vickovic S, Eraslan G, Salmén F, ..., Regev A, Ståhl PL

Nat. Methods 16 (10) 987-990 [2019-10-00; online 2019-09-09]

Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

Genetic basis and timing of a major mating system shift in Capsella.

Bachmann JA, Tedder A, Laenen B, ..., Castric V, Slotte T

New Phytol. 224 (1) 505-517 [2019-10-00; online 2019-08-01]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Association between Transcription Factor AP-2B genotype, obesity, insulin resistance and dietary intake in a longitudinal birth cohort study.

Joost U, Villa I, Comasco E, ..., Veidebaum T, Harro J

Int J Obes (Lond) 43 (10) 2095-2106 [2019-10-00; online 2019-06-17]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

EvoChromo: towards a synthesis of chromatin biology and evolution.

Drinnenberg IA, Berger F, Elsässer SJ, ..., Warnecke T, Wolfe KH

Development 146 (19) - [2019-09-26; online 2019-09-26]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Cytoplasmic protein misfolding titrates Hsp70 to activate nuclear Hsf1.

Masser AE, Kang W, Roy J, ..., Friedländer MR, Andréasson C

Elife 8 (-) - [2019-09-25; online 2019-09-25]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Chromatin conformation remains stable upon extensive transcriptional changes driven by heat shock.

Ray J, Munn PR, Vihervaara A, ..., Danko CG, Lis JT

Proc. Natl. Acad. Sci. U.S.A. 116 (39) 19431-19439 [2019-09-24; online 2019-09-10]

Anniina Vihervaara SciLifeLab Fellow

PubMed DOI Crossref

What industry can teach academia.

Mao Y

Science (New York, N.Y.) 365 (6459) 1342 [2019-09-20; online 2019-10-12]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

Quantitative Multiplexed ChIP Reveals Global Alterations that Shape Promoter Bivalency in Ground State Embryonic Stem Cells.

Kumar B, Elsässer SJ

Cell Reports 28 (12) 3274-3284.e5 [2019-09-17; online 2019-09-19]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Mechanical properties of plasma membrane vesicles correlate with lipid order, viscosity and cell density.

Steinkühler J, Sezgin E, Urbančič I, Eggeling C, Dimova R

Commun Biol 2 (-) 337 [2019-09-13; online 2019-09-13]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Peptide-Induced Lipid Flip-Flop in Asymmetric Liposomes Measured by Small Angle Neutron Scattering.

Nguyen MHL, DiPasquale M, Rickeard BW, ..., Katsaras J, Marquardt D

Langmuir 35 (36) 11735-11744 [2019-09-10; online 2019-08-27]

DDLS Fellow Milka Doktorova

DOI Crossref

Strategies to Reduce or Eliminate Resistant Pathogens in the Environment

Bengtsson‐Palme J, Heß S

Antibiotic Drug Resistance - (-) 637-673 [2019-09-09; online 2019-08-23]

DDLS Fellow Johan Bengtsson-Palme

DOI Crossref

Mumame: a software tool for quantifying gene-specific point-mutations in shotgun metagenomic data

Magesh S, Jonsson V, Bengtsson-Palme J

MBMG 3 (-) - [2019-09-04; online 2019-09-04]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Insights Into Enhanced Complement Activation by Structures of Properdin and Its Complex With the C-Terminal Domain of C3b.

van den Bos RM, Pearce NM, Granneman J, Brondijk THC, Gros P

Front Immunol 10 (-) 2097 [2019-09-04; online 2019-09-04]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Streptococcal sagA activates a proinflammatory response in mast cells by a sublytic mechanism.

von Beek C, Waern I, Eriksson J, ..., Guss B, Pejler G

Cell. Microbiol. 21 (9) e13064 [2019-09-00; online 2019-07-07]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Salmonella persisters promote the spread of antibiotic resistance plasmids in the gut.

Bakkeren E, Huisman JS, Fattinger SA, ..., Diard M, Hardt WD

Nature 573 (7773) 276-280 [2019-09-00; online 2019-09-04]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Investigation of the skin microbiome: swabs vs. biopsies.

Prast-Nielsen S, Tobin AM, Adamzik K, ..., Engstrand L, Fry L

Br. J. Dermatol. 181 (3) 572-579 [2019-09-00; online 2019-05-06]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Impact of demography on linked selection in two outcrossing Brassicaceae species.

Mattila TM, Laenen B, Horvath R, ..., Savolainen O, Slotte T

Ecol Evol 9 (17) 9532-9545 [2019-09-00; online 2019-08-13]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Genomic data provide new insights on the demographic history and the extent of recent material transfers in Norway spruce.

Chen J, Li L, Milesi P, ..., Vendramin GG, Lascoux M

Evol Appl 12 (8) 1539-1551 [2019-09-00; online 2019-04-30]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Early life stress and voluntary alcohol consumption in relation to Maoa methylation in male rats.

Bendre M, Granholm L, Drennan R, ..., Nylander I, Comasco E

Alcohol 79 (-) 7-16 [2019-09-00; online 2018-11-08]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Turning Up the Heat: Local Temperature Control During in vivo Imaging of Immune Cells.

Ahl D, Eriksson O, Sedin J, ..., Christoffersson G, Phillipson M

Front Immunol 10 (-) 2036 [2019-08-27; online 2019-08-27]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Nanoscale dynamics of cholesterol in the cell membrane.

Pinkwart K, Schneider F, Lukoseviciute M, ..., Eggeling C, Sezgin E

J. Biol. Chem. 294 (34) 12599-12609 [2019-08-23; online 2019-07-03]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Molecular Basis and Ecological Relevance of Caulobacter Cell Filamentation in Freshwater Habitats.

Heinrich K, Leslie DJ, Morlock M, Bertilsson S, Jonas K

MBio 10 (4) - [2019-08-20; online 2019-08-20]

Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

Progress towards the Tree of Eukaryotes.

Keeling PJ, Burki F

Curr. Biol. 29 (16) R808-R817 [2019-08-19; online 2019-08-21]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

MRPS25 mutations impair mitochondrial translation and cause encephalomyopathy.

Bugiardini E, Mitchell AL, Rosa ID, ..., Pitceathly RDS, Spinazzola A

Hum. Mol. Genet. 28 (16) 2711-2719 [2019-08-15; online 2019-05-01]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

LIPG-promoted lipid storage mediates adaptation to oxidative stress in breast cancer.

Cadenas C, Vosbeck S, Edlund K, ..., Marchan R, Hengstler JG

Int. J. Cancer 145 (4) 901-915 [2019-08-15; online 2019-02-07]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Chemoselective probe for detailed analysis of ketones and aldehydes produced by gut microbiota in human samples.

Conway LP, Garg N, Lin W, ..., Löhr JM, Globisch D

Chem. Commun. (Camb.) 55 (62) 9080-9083 [2019-08-11; online 2019-07-09]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

DiscoverY: a classifier for identifying Y chromosome sequences in male assemblies.

Rangavittal S, Stopa N, Tomaszkiewicz M, ..., Makova KD, Medvedev P

BMC Genomics 20 (1) 641 [2019-08-09; online 2019-08-09]

Kristoffer Sahlin SciLifeLab Fellow

PubMed DOI Crossref

The ribosomal protein S1-dependent standby site in tisB mRNA consists of a single-stranded region and a 5' structure element.

Romilly C, Deindl S, Wagner EGH

Proc. Natl. Acad. Sci. U.S.A. 116 (32) 15901-15906 [2019-08-06; online 2019-07-18]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Tools for Bioimaging Pancreatic β Cells in Diabetes.

Kang NY, Soetedjo AAP, Amirruddin NS, ..., Eriksson O, Teo AKK

Trends in molecular medicine 25 (8) 708-722 [2019-08-00; online 2019-06-06]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Strategies for increasing the throughput of super-resolution microscopies.

Mahecic D, Testa I, Griffié J, Manley S

Curr Opin Chem Biol 51 (-) 84-91 [2019-08-00; online 2019-06-15]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Single-cell expression noise and gene-body methylation in Arabidopsis thaliana.

Horvath R, Laenen B, Takuno S, Slotte T

Heredity (Edinb) 123 (2) 81-91 [2019-08-00; online 2019-01-16]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Hypothalamic-pituitary-adrenal axis responsiveness, startle response, and sensorimotor gating in late pregnancy.

Breedh J, Comasco E, Hellgren C, ..., Skalkidou A, Poromaa IS

Psychoneuroendocrinology 106 (-) 1-8 [2019-08-00; online 2019-03-15]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Human prenatal exposure to polychlorinated biphenyls (PCBs) and risk behaviors in adolescence.

Dickerson AS, Ransome Y, Karlsson O

Environ Int 129 (-) 247-255 [2019-08-00; online 2019-05-27]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Elucidating the Reprograming of Colorectal Cancer Metabolism Using Genome-Scale Metabolic Modeling.

Zhang C, Aldrees M, Arif M, ..., Mardinoglu A, Aziz MA

Front Oncol 9 (-) 681 [2019-07-30; online 2019-07-30]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

A validated single-cell-based strategy to identify diagnostic and therapeutic targets in complex diseases.

Gawel DR, Serra-Musach J, Lilja S, ..., Gustafsson M, Benson M

Genome Med 11 (1) 47 [2019-07-30; online 2019-07-30]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Amyloid fibril polymorphism and cell-specific toxicity in vivo.

Jonson M, Nyström S, Sandberg A, ..., Thor S, Hammarström P

Amyloid 26 (sup1) 136-137 [2019-07-26; online 2019-07-26]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Intra- and Inter-cellular Rewiring of the Human Colon during Ulcerative Colitis.

Smillie CS, Biton M, Ordovas-Montanes J, ..., Xavier RJ, Regev A

Cell 178 (3) 714-730.e22 [2019-07-25; online 2019-07-28]

Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

Constitutive Serotonin Transporter Reduction Resembles Maternal Separation with Regard to Stress-Related Gene Expression.

Comasco E, Schijven D, de Maeyer H, ..., Sundström-Poromaa I, Olivier JDA

ACS Chem Neurosci 10 (7) 3132-3142 [2019-07-17; online 2019-01-23]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

The Potential Use of Metabolic Cofactors in Treatment of NAFLD.

Mardinoglu A, Ural D, Zeybel M, ..., Uhlén M, Borén J

Nutrients 11 (7) 1578 [2019-07-12; online 2019-07-12]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Structure-based mechanism for activation of the AAA+ GTPase McrB by the endonuclease McrC.

Nirwan N, Itoh Y, Singh P, ..., Amunts A, Saikrishnan K

Nat Commun 10 (1) 3058 [2019-07-11; online 2019-07-11]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Coupled Enzymatic Treatment and Mass Spectrometric Analysis for Identification of Glucuronidated Metabolites in Human Samples.

Correia MSP, Rao M, Ballet C, Globisch D

Chembiochem 20 (13) 1678-1683 [2019-07-01; online 2019-05-08]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Regulation of the replication initiator DnaA in Caulobacter crescentus.

Felletti M, Omnus DJ, Jonas K

Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1862 (7) 697-705 [2019-07-00; online 2018-01-31]

Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

Plasma Proteomics Analysis Reveals Dysregulation of Complement Proteins and Inflammation in Acquired Obesity-A Study on Rare BMI-Discordant Monozygotic Twin Pairs.

Sahebekhtiari N, Saraswat M, Joenväärä S, ..., Renkonen R, Pietiläinen KH

Proteomics Clin Appl 13 (4) e1800173 [2019-07-00; online 2019-02-05]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Outlining the proton-conduction pathway in otopetrin channels.

Delemotte L

Nat. Struct. Mol. Biol. 26 (7) 528-530 [2019-07-00; online 2019-06-27]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Cryo-EM structure of the activated RET signaling complex reveals the importance of its cysteine-rich domain.

Bigalke JM, Aibara S, Roth R, ..., Amunts A, Sandmark J

Sci Adv 5 (7) eaau4202 [2019-07-00; online 2019-07-31]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

3D-Printed Whole Prostate Models with Tumor Hotspots Using Dual-Extruder Printer.

Liimatainen K, Latonen L, Kartasalo K, Ruusuvuori P

Annu Int Conf IEEE Eng Med Biol Soc 2019 (-) 2867-2871 [2019-07-00; online 2020-01-18]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

The Next Generation of Pattern Recognition Receptor Agonists: Improving Response Rates in Cancer Immunotherapy.

O' Donovan DH, Mao Y, Mele DA

Current medicinal chemistry 27 (34) 5654-5674 [2019-06-30; online 2019-06-30]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

GPR44 as a Target for Imaging Pancreatic Beta-Cell Mass.

Eriksson O

Current diabetes reports 19 (8) 49 [2019-06-27; online 2019-06-27]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Serotype-specific evolutionary patterns of antimicrobial-resistant Salmonella enterica.

Liao J, Orsi RH, Carroll LM, ..., Zhang H, Wiedmann M

BMC Evol Biol BMC Evolutionary Biology 19 (1) 132 [2019-06-21; online 2019-06-21]

DDLS Fellow Laura Carroll

DOI Crossref

Shotgun Environmental DNA, Pollen, and Macrofossil Analysis of Lateglacial Lake Sediments From Southern Sweden

Parducci L, Alsos IG, Unneberg P, ..., Slotte T, Wohlfarth B

Front. Ecol. Evol. 7 (-) - [2019-06-20; online 2019-06-20]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Mitotically heritable effects of BMAA on striatal neural stem cell proliferation and differentiation.

Pierozan P, Karlsson O

Cell Death Dis 10 (7) 478 [2019-06-17; online 2019-06-17]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Conformational switches control early maturation of the eukaryotic small ribosomal subunit.

Hunziker M, Barandun J, Buzovetsky O, ..., Molina H, Klinge S

Elife 8 (-) - [2019-06-17; online 2019-06-17]

Jonas Barandun SciLifeLab Fellow

PubMed DOI Crossref

Colitis-induced colorectal cancer and intestinal epithelial estrogen receptor beta impact gut microbiota diversity.

Ibrahim A, Hugerth LW, Hases L, ..., Engstrand L, Williams C

Int. J. Cancer 144 (12) 3086-3098 [2019-06-15; online 2019-01-11]

DDLS Fellow Luisa Hugerth

DOI Crossref

RMetD2: a tool for integration of relative transcriptomics data into Genome-scale metabolic models

Zhang C, Lee S, Bidkhori G, ..., Nielsen J, Mardinoglu A

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Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Regulatory Immune Mechanisms beyond Regulatory T Cells.

Christoffersson G, von Herrath M

Trends Immunol. 40 (6) 482-491 [2019-06-00; online 2019-05-14]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Growth-driven displacement of protein aggregates along the cell length ensures partitioning to both daughter cells in Caulobacter crescentus.

Schramm FD, Schroeder K, Alvelid J, Testa I, Jonas K

Mol. Microbiol. 111 (6) 1430-1448 [2019-06-00; online 2019-04-03]

Ilaria Testa Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

Biorelevant intrinsic dissolution profiling in early drug development: Fundamental, methodological, and industrial aspects.

Bergström CAS, Box K, Holm R, ..., Schäfer KJ, Teleki A

Eur J Pharm Biopharm 139 (-) 101-114 [2019-06-00; online 2019-03-09]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

Assembly and Characterization of a Pathogen Strain Collection for Produce Safety Applications: Pre-growth Conditions Have a Larger Effect on Peroxyacetic Acid Tolerance Than Strain Diversity.

Harrand AS, Kovac J, Carroll LM, ..., Kent DJ, Wiedmann M

Front Microbiol 10 (-) 1223 [2019-05-31; online 2019-05-31]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Sex differences in IL-17 contribute to chronicity in male versus female urinary tract infection.

Zychlinsky Scharff A, Rousseau M, Lacerda Mariano L, ..., Duffy D, Ingersoll MA

JCI Insight 5 (13) - [2019-05-30; online 2019-05-30]

Camila Consiglio DDLS Fellow

PubMed DOI Crossref

Mucus Architecture and Near-Surface Swimming Affect Distinct Salmonella Typhimurium Infection Patterns along the Murine Intestinal Tract.

Furter M, Sellin ME, Hansson GC, Hardt WD

Cell Reports 27 (9) 2665-2678.e3 [2019-05-28; online 2019-05-30]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Barcoded Consortium Infections Resolve Cell Type-Dependent Salmonella enterica Serovar Typhimurium Entry Mechanisms.

Di Martino ML, Ek V, Hardt WD, Eriksson J, Sellin ME

MBio 10 (3) - [2019-05-21; online 2019-05-21]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Lysosomotropic challenge of mast cells causes intra-granular reactive oxygen species production.

Paivandy A, Eriksson J, Melo FR, Sellin ME, Pejler G

Cell death discovery 5 (1) 95 [2019-05-15; online 2019-05-15]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

EXOSC10 is required for RPA assembly and controlled DNA end resection at DNA double-strand breaks.

Domingo-Prim J, Endara-Coll M, Bonath F, ..., Huertas P, Visa N

Nat Commun 10 (1) 2135 [2019-05-13; online 2019-05-13]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Mucosal-associated invariant T cells and oral microbiome in persistent apical periodontitis.

Davanian H, Gaiser RA, Silfverberg M, ..., Engstrand L, Sällberg Chen M

Int J Oral Sci 11 (2) 16 [2019-05-09; online 2019-05-09]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Mucispirillum schaedleri Antagonizes Salmonella Virulence to Protect Mice against Colitis.

Herp S, Brugiroux S, Garzetti D, ..., Berry D, Stecher B

Cell Host Microbe 25 (5) 681-694.e8 [2019-05-08; online 2019-04-18]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Multi-Omic Data Interpretation to Repurpose Subtype Specific Drug Candidates for Breast Cancer.

Turanli B, Karagoz K, Bidkhori G, ..., Mardinoglu A, Arga KY

Front Genet 10 (-) 420 [2019-05-07; online 2019-05-07]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Identification of Novel Mobilized Colistin Resistance Gene mcr-9 in a Multidrug-Resistant, Colistin-Susceptible Salmonella enterica Serotype Typhimurium Isolate.

Carroll LM, Gaballa A, Guldimann C, ..., Henderson LO, Wiedmann M

MBio 10 (3) - [2019-05-07; online 2019-05-07]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Human skin long noncoding RNA WAKMAR1 regulates wound healing by enhancing keratinocyte migration.

Li D, Kular L, Vij M, ..., Jagodic M, Landén NX

Proc. Natl. Acad. Sci. U.S.A. 116 (19) 9443-9452 [2019-05-07; online 2019-04-24]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Long Time-Scale Atomistic Simulations of the Structure and Dynamics of Transcription Factor-DNA Recognition.

Liao Q, Lüking M, Krüger DM, ..., Kasson PM, Lynn Kamerlin SC

J Phys Chem B 123 (17) 3576-3590 [2019-05-02; online 2019-04-18]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Towards the new normal: Transcriptomic convergence and genomic legacy of the two subgenomes of an allopolyploid weed (Capsella bursa-pastoris).

Kryvokhyzha D, Milesi P, Duan T, ..., Glémin S, Lascoux M

PLoS Genet 15 (5) e1008131 [2019-05-00; online 2019-05-13]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Skalkidou A, Poromaa IS, Iliadis SI, ..., Freyhult E, Comasco E

Psychoneuroendocrinology 103 (-) 296-305 [2019-05-00; online 2019-02-07]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

GM1 locates to mature amyloid structures implicating a prominent role for glycolipid-protein interactions in Alzheimer pathology.

Michno W, Wehrli PM, Zetterberg H, Blennow K, Hanrieder J

Biochim Biophys Acta Proteins Proteom 1867 (5) 458-467 [2019-05-00; online 2018-09-28]

SciLifeLab Fellow Wojciech Michno

DOI Crossref

<scp>CoordinateCleaner</scp> : Standardized cleaning of occurrence records from biological collection databases

Zizka A, Silvestro D, Andermann T, ..., Zizka V, Antonelli A

Methods Ecol Evol 10 (5) 744-751 [2019-05-00; online 2019-02-24]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Pyroglutamation of amyloid-βx-42 (Aβx-42) followed by Aβ1-40 deposition underlies plaque polymorphism in progressing Alzheimer's disease pathology.

Michno W, Nyström S, Wehrli P, ..., Zetterberg H, Hanrieder J

J Biol Chem 294 (17) 6719-6732 [2019-04-26; online 2019-02-27]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Non-Invasive Imaging Methodologies for Assessment of Radiation Damage to Bone Marrow and Kidneys from Peptide Receptor Radionuclide Therapy.

Ahlstedt J, Johansson E, Sydoff M, ..., Gram M, Eriksson O

Neuroendocrinology 110 (1-2) 130-138 [2019-04-19; online 2019-04-19]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Direct observation of coordinated DNA movements on the nucleosome during chromatin remodelling.

Sabantsev A, Levendosky RF, Zhuang X, Bowman GD, Deindl S

Nat Commun 10 (1) 1720 [2019-04-12; online 2019-04-12]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Receptor-Independent Transfer of Low Density Lipoprotein Cargo to Biomembranes.

Axmann M, Sezgin E, Karner A, ..., Stangl H, Plochberger B

Nano Lett. 19 (4) 2562-2567 [2019-04-10; online 2019-03-08]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

iFISH is a publically available resource enabling versatile DNA FISH to study genome architecture.

Gelali E, Girelli G, Matsumoto M, ..., Crosetto N, Bienko M

Nat Commun 10 (1) 1636 [2019-04-09; online 2019-04-09]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Spatiotemporal dynamics of molecular pathology in amyotrophic lateral sclerosis.

Maniatis S, Äijö T, Vickovic S, ..., Bonneau R, Phatnani H

Science (New York, N.Y.) 364 (6435) 89-93 [2019-04-05; online 2019-04-06]

Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

System-wide Profiling of RNA-Binding Proteins Uncovers Key Regulators of Virus Infection.

Garcia-Moreno M, Noerenberg M, Ni S, ..., Mohammed S, Castello A

Mol. Cell 74 (1) 196-211.e11 [2019-04-04; online 2019-02-21]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Mature Human White Adipocytes Cultured under Membranes Maintain Identity, Function, and Can Transdifferentiate into Brown-like Adipocytes.

Harms MJ, Li Q, Lee S, ..., Spalding KL, Boucher J

Cell Reports 27 (1) 213-225.e5 [2019-04-02; online 2019-04-04]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Case Reports of Pre-clinical Replication Studies in Metabolism and Diabetes.

von Herrath M, Pagni PP, Grove K, ..., Karlsen AE, Petersen JS

Cell Metab. 29 (4) 795-802 [2019-04-02; online 2019-03-14]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

New Phylogenomic Analysis of the Enigmatic Phylum Telonemia Further Resolves the Eukaryote Tree of Life.

Strassert JFH, Jamy M, Mylnikov AP, Tikhonenkov DV, Burki F

Mol. Biol. Evol. 36 (4) 757-765 [2019-04-01; online 2019-01-23]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Synthesis and preclinical evaluation of the CRTH2 antagonist [11C]MK-7246 as a novel PET tracer and potential surrogate marker for pancreatic beta-cell mass.

Eriksson J, Roy T, Sawadjoon S, ..., Eriksson O, Odell LR

Nucl. Med. Biol. 71 (-) 1-10 [2019-04-00; online 2019-04-13]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Measuring nanoscale diffusion dynamics in cellular membranes with super-resolution STED-FCS.

Sezgin E, Schneider F, Galiani S, ..., Lagerholm BC, Eggeling C

Nat Protoc 14 (4) 1054-1083 [2019-04-00; online 2019-03-06]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Liver macrophages regulate systemic metabolism through non-inflammatory factors.

Morgantini C, Jager J, Li X, ..., Bajgar A, Aouadi M

Nat Metab 1 (4) 445-459 [2019-04-00; online 2019-03-25]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Discovery of therapeutic agents for prostate cancer using genome-scale metabolic modeling and drug repositioning.

Turanli B, Zhang C, Kim W, ..., Arga KY, Mardinoglu A

EBioMedicine 42 (-) 386-396 [2019-04-00; online 2019-03-21]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Deep Learning in Image Cytometry: A Review.

Gupta A, Harrison PJ, Wieslander H, ..., Sintorn I, Wählby C

Cytometry A 95 (4) 366-380 [2019-04-00; online 2018-12-19]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

A whole-brain atlas of monosynaptic input targeting four different cell types in the medial prefrontal cortex of the mouse.

Ährlund-Richter S, Xuan Y, van Lunteren JA, ..., Meletis K, Carlén M

Nat. Neurosci. 22 (4) 657-668 [2019-04-00; online 2019-03-18]

Iskra Pollak Dorocic SciLifeLab Fellow

PubMed DOI Crossref

Comprehensive kinetic and substrate specificity analysis of an arylsulfatase from Helix pomatia using mass spectrometry.

Correia MSP, Ballet C, Meistermann H, Conway LP, Globisch D

Bioorg. Med. Chem. 27 (6) 955-962 [2019-03-15; online 2019-01-30]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Expression of PD-L1 and PD-1 in Chemoradiotherapy-Naïve Esophageal and Gastric Adenocarcinoma: Relationship With Mismatch Repair Status and Survival.

Svensson MC, Borg D, Zhang C, ..., Leandersson K, Jirström K

Front Oncol 9 (-) 136 [2019-03-13; online 2019-03-13]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Gramicidin Increases Lipid Flip-Flop in Symmetric and Asymmetric Lipid Vesicles.

Doktorova M, Heberle FA, Marquardt D, ..., Weinstein H, Andersen OS

Biophys. J. 116 (5) 860-873 [2019-03-05; online 2019-01-25]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Vertical stratification of bacteria and archaea in sediments of a small boreal humic lake.

Rissanen AJ, Peura S, Mpamah PA, ..., Mäki A, Nykänen H

FEMS Microbiol. Lett. 366 (5) - [2019-03-01; online 2019-02-27]

Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

Pyruvate kinase L/R is a regulator of lipid metabolism and mitochondrial function.

Liu Z, Zhang C, Lee S, ..., Boren J, Mardinoglu A

Metab. Eng. 52 (-) 263-272 [2019-03-00; online 2019-01-04]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Plant microRNAs in human sera are likely contaminants.

Fromm B, Kang W, Rovira C, ..., Friedländer MR, Tosar JP

J Nutr Biochem 65 (-) 139-140 [2019-03-00; online 2018-09-05]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Pervasive population genomic consequences of genome duplication in Arabidopsis arenosa.

Monnahan P, Kolář F, Baduel P, ..., Bomblies K, Yant L

Nat Ecol Evol 3 (3) 457-468 [2019-03-00; online 2019-02-25]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Long-term balancing selection drives evolution of immunity genes in Capsella.

Koenig D, Hagmann J, Li R, ..., Wright SI, Weigel D

Elife 8 (-) - [2019-02-26; online 2019-02-26]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Evolutionary Implications of the microRNA- and piRNA Complement of Lepidodermella squamata (Gastrotricha).

Fromm B, Tosar JP, Aguilera F, ..., Bachmann L, Hejnol A

Noncoding RNA 5 (1) 19 [2019-02-22; online 2019-02-22]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

First-in-class positron emission tomography tracer for the glucagon receptor.

Velikyan I, Haack T, Bossart M, ..., Wagner M, Eriksson O

EJNMMI Res 9 (1) 17 [2019-02-15; online 2019-02-15]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Heterogeneity of Metabolic Defects in Type 2 Diabetes and Its Relation to Reactive Oxygen Species and Alterations in Beta-Cell Mass.

Elksnis A, Martinell M, Eriksson O, Espes D

Front. Physiol. 10 (-) 107 [2019-02-13; online 2019-02-13]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Characterization of Emetic and Diarrheal Bacillus cereus Strains From a 2016 Foodborne Outbreak Using Whole-Genome Sequencing: Addressing the Microbiological, Epidemiological, and Bioinformatic Challenges.

Carroll LM, Wiedmann M, Mukherjee M, ..., Cole JA, Kovac J

Front Microbiol 10 (-) 144 [2019-02-12; online 2019-02-12]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

A conserved molecular switch in Class F receptors regulates receptor activation and pathway selection.

Wright SC, Kozielewicz P, Kowalski-Jahn M, ..., Carlsson J, Schulte G

Nat Commun 10 (1) 667 [2019-02-08; online 2019-02-08]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Kinetic modeling of the Calvin cycle identifies flux control and stable metabolomes in Synechocystis carbon fixation.

Janasch M, Asplund-Samuelsson J, Steuer R, Hudson EP

J. Exp. Bot. 70 (3) 973-983 [2019-02-05; online 2018-10-30]

Paul Hudson SciLifeLab Fellow

PubMed DOI Crossref

A New Computational Method for Membrane Compressibility: Bilayer Mechanical Thickness Revisited.

Doktorova M, LeVine MV, Khelashvili G, Weinstein H

Biophys. J. 116 (3) 487-502 [2019-02-05; online 2019-01-03]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Structural Patching Fosters Divergence of Mitochondrial Ribosomes.

Petrov AS, Wood EC, Bernier CR, ..., Brown A, Amunts A

Mol. Biol. Evol. 36 (2) 207-219 [2019-02-01; online 2018-12-06]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Smart scanning for low-illumination and fast RESOLFT nanoscopy in vivo.

Dreier J, Castello M, Coceano G, ..., Vicidomini G, Testa I

Nat Commun 10 (1) 556 [2019-02-01; online 2019-02-01]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Transcription-driven chromatin repression of Intragenic transcription start sites.

Nielsen M, Ard R, Leng X, ..., Pelechano V, Marquardt S

PLoS Genet 15 (2) e1007969 [2019-02-00; online 2019-02-01]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

How good are pathogenicity predictors in detecting benign variants?

Niroula A, Vihinen M

PLoS Comput Biol 15 (2) e1006481 [2019-02-00; online 2019-02-11]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Characterization of heterogeneous redox responses in hepatocellular carcinoma patients using network analysis.

Benfeitas R, Bidkhori G, Mukhopadhyay B, ..., Kunos G, Mardinoglu A

EBioMedicine 40 (-) 471-487 [2019-02-00; online 2018-12-31]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

TCF/LEF dependent and independent transcriptional regulation of Wnt/β-catenin target genes.

Doumpas N, Lampart F, Robinson MD, ..., Cantù C, Basler K

EMBO J. 38 (2) - [2019-01-15; online 2018-11-13]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Discovery of KIRREL as a biomarker for prognostic stratification of patients with thin melanoma.

Lundgren S, Fagerström-Vahman H, Zhang C, ..., Nodin B, Jirström K

Biomark Res 7 (1) 1 [2019-01-14; online 2019-01-14]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Diarrheal bacterial pathogens and multi-resistant enterobacteria in the Choqueyapu River in La Paz, Bolivia.

Guzman-Otazo J, Gonzales-Siles L, Poma V, ..., Iñiguez V, Sjöling Å

PLoS ONE 14 (1) e0210735 [2019-01-14; online 2019-01-14]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Negative Association Between Allopregnanolone and Cerebral Serotonin Transporter Binding in Healthy Women of Fertile Age.

Sundström Poromaa I, Comasco E, Bäckström T, ..., Jensen P, Frokjaer VG

Front Psychol 9 (-) 2767 [2019-01-11; online 2019-01-11]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

The Circulating Transcriptome as a Source of Biomarkers for Melanoma.

Solé C, Tramonti D, Schramm M, ..., Middleton MR, Lawrie CH

Cancers (Basel) 11 (1) 70 [2019-01-10; online 2019-01-10]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Decreased Snow Cover Stimulates Under-Ice Primary Producers but Impairs Methanotrophic Capacity.

Garcia SL, Szekely AJ, Bergvall C, Schattenhofer M, Peura S

mSphere 4 (1) - [2019-01-09; online 2019-01-09]

Sarahi Garcia Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications.

Nilsson RH, Larsson KH, Taylor AFS, ..., Kõljalg U, Abarenkov K

Nucleic Acids Res. 47 (D1) D259-D264 [2019-01-08; online 2018-10-30]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Ascetosporea.

Bass D, Ward GM, Burki F

Curr. Biol. 29 (1) R7-R8 [2019-01-07; online 2019-01-09]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

The Major RNA-Binding Protein ProQ Impacts Virulence Gene Expression in Salmonella enterica Serovar Typhimurium.

Westermann AJ, Venturini E, Sellin ME, ..., Hardt WD, Vogel J

MBio 10 (1) - [2019-01-02; online 2019-01-02]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

A Neural Circuit Mechanism for Encoding Aversive Stimuli in the Mesolimbic Dopamine System.

de Jong JW, Afjei SA, Pollak Dorocic I, ..., Deisseroth K, Lammel S

Neuron 101 (1) 133-151.e7 [2019-01-02; online 2018-11-29]

Iskra Pollak Dorocic SciLifeLab Fellow

PubMed DOI Crossref

Large expert-curated database for benchmarking document similarity detection in biomedical literature search.

Brown P, RELISH Consortium , Zhou Y

Database (Oxford) 2019 (-) - [2019-01-01; online 2019-01-01]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Allele Phasing Greatly Improves the Phylogenetic Utility of Ultraconserved Elements.

Andermann T, Fernandes AM, Olsson U, ..., Faircloth BC, Antonelli A

Syst. Biol. 68 (1) 32-46 [2019-01-01; online 2018-05-18]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Revisions to the Classification, Nomenclature, and Diversity of Eukaryotes.

Adl SM, Bass D, Lane CE, ..., Zlatogursky V, Zhang Q

J. Eukaryot. Microbiol. 66 (1) 4-119 [2019-01-00; online 2018-09-27]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Phylogenomics supports the monophyly of the Cercozoa.

Irwin NAT, Tikhonenkov DV, Hehenberger E, ..., Burki F, Keeling PJ

Mol. Phylogenet. Evol. 130 (-) 416-423 [2019-01-00; online 2018-10-11]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Introducing ribosomal tandem repeat barcoding for fungi.

Wurzbacher C, Larsson E, Bengtsson-Palme J, ..., Kagami M, Nilsson RH

Mol Ecol Resour 19 (1) 118-127 [2019-01-00; online 2018-10-24]

DDLS Fellow Johan Bengtsson-Palme

DOI Crossref

Next-Generation Sequencing

Wiedmann M, Carroll LM

- - (-) 376-383 [2019-00-00; online 2019-00-00]

DDLS Fellow Laura Carroll

DOI Crossref

Nanostructured Minerals and Vitamins for Food Fortification and Food Supplementation

Knijnenburg JTN, Posavec L, Teleki A

- - (-) 63-98 [2019-00-00; online 2019-00-00]

Alexandra Teleki SciLifeLab Fellow

DOI Crossref

Assessment and Management of Risks Associated With Antibiotic Resistance in the Environment

Bengtsson-Palme J

Management of Emerging Public Health Issues and Risks: Multidisciplinary Approaches to the Changing Environment - (-) 243-263 [2019-00-00; online 2019-00-00]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

The development of a GPR44 targeting radioligand [11C]AZ12204657 for in vivo assessment of beta cell mass.

Jahan M, Johnström P, Selvaraju RK, ..., Halldin C, Eriksson O

EJNMMI Res 8 (1) 113 [2018-12-27; online 2018-12-27]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

CD45 exclusion- and cross-linking-based receptor signaling together broaden FcεRI reactivity.

Felce JH, Sezgin E, Wane M, ..., Eggeling C, Davis SJ

Sci Signal 11 (561) - [2018-12-18; online 2018-12-18]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

acI Actinobacteria Assemble a Functional Actinorhodopsin with Natively Synthesized Retinal.

Dwulit-Smith JR, Hamilton JJ, Stevenson DM, ..., McMahon KD, Forest KT

Applied and environmental microbiology 84 (24) - [2018-12-15; online 2018-11-30]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

Next-generation sequencing reveals two populations of damage-induced small RNAs at endogenous DNA double-strand breaks.

Bonath F, Domingo-Prim J, Tarbier M, Friedländer MR, Visa N

Nucleic Acids Res. 46 (22) 11869-11882 [2018-12-14; online 2018-11-13]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Metabolic network-based stratification of hepatocellular carcinoma reveals three distinct tumor subtypes.

Bidkhori G, Benfeitas R, Klevstig M, ..., Boren J, Mardinoglu A

Proc. Natl. Acad. Sci. U.S.A. 115 (50) E11874-E11883 [2018-12-11; online 2018-11-27]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

miRTrace reveals the organismal origins of microRNA sequencing data.

Kang W, Eldfjell Y, Fromm B, ..., Biryukova I, Friedländer MR

Genome Biol. 19 (1) 213 [2018-12-04; online 2018-12-04]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

FZD5 is a Gαq-coupled receptor that exhibits the functional hallmarks of prototypical GPCRs.

Wright SC, Cañizal MCA, Benkel T, ..., Schulte G, Hoffmann C

Sci Signal 11 (559) eaar5536 [2018-12-04; online 2018-12-04]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Tumor suppressor PNRC1 blocks rRNA maturation by recruiting the decapping complex to the nucleolus.

Gaviraghi M, Vivori C, Pareja Sanchez Y, ..., Cittaro D, Tonon G

EMBO J. 37 (23) - [2018-12-03; online 2018-10-29]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Methanogens and Iron-Reducing Bacteria: the Overlooked Members of Mercury-Methylating Microbial Communities in Boreal Lakes.

Bravo AG, Peura S, Buck M, ..., Björn E, Bertilsson S

Applied and environmental microbiology 84 (23) - [2018-12-01; online 2018-11-15]

Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

Metaxa2 Database Builder: enabling taxonomic identification from metagenomic or metabarcoding data using any genetic marker.

Bengtsson-Palme J, Richardson RT, Meola M, ..., Hartmann M, Nilsson RH

Bioinformatics 34 (23) 4027-4033 [2018-12-01; online 2018-06-19]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Multiscale patterns and drivers of arbuscular mycorrhizal fungal communities in the roots and root-associated soil of a wild perennial herb.

Rasmussen PU, Hugerth LW, Blanchet FG, ..., Lindahl BD, Tack AJM

New Phytol. 220 (4) 1248-1261 [2018-12-00; online 2018-03-24]

DDLS Fellow Luisa Hugerth

DOI Crossref

HYPERPARAMETER OPTIMIZATION FOR APPROXIMATE BAYESIAN COMPUTATION

Singh P, Hellander A

- - (-) - [2018-12-00; online 2018-12-00]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Detection and quantification of beta cells by PET imaging: why clinical implementation has never been closer.

Gotthardt M, Eizirik DL, Aanstoot HJ, ..., Cnop M, Brom M

Diabetologia 61 (12) 2516-2519 [2018-12-00; online 2018-10-03]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Cost-effective generation of precise label-free quantitative proteomes in high-throughput by microLC and data-independent acquisition

Vowinckel J, Zelezniak A, Bruderer R, ..., Reiter L, Ralser M

Sci Rep 8 (1) - [2018-12-00; online 2018-03-12]

Affiliated researcher Aleksej Zelezniak SciLifeLab Fellow

PubMed DOI Crossref

Control of hepatic gluconeogenesis by Argonaute2.

Yan X, Wang Z, Bishop CA, ..., Willnow TE, Poy MN

Mol Metab 18 (-) 15-24 [2018-12-00; online 2018-10-09]

Marc Friedländer SciLifeLab Fellow

DOI Crossref

Bridging gaps in transposable element research with single-molecule and single-cell technologies

Kutter C, Jern P, Suh A

Mobile DNA 9 (1) - [2018-12-00; online 2018-12-06]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

RollFISH achieves robust quantification of single-molecule RNA biomarkers in paraffin-embedded tumor tissue samples.

Wu C, Simonetti M, Rossell C, ..., Crosetto N, Nilsson M

Commun Biol 1 (1) 209 [2018-11-28; online 2018-11-28]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Vimentin deficiency in macrophages induces increased oxidative stress and vascular inflammation but attenuates atherosclerosis in mice.

Håversen L, Sundelin JP, Mardinoglu A, ..., Levin M, Borén J

Sci Rep 8 (1) 16973 [2018-11-19; online 2018-11-19]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Methanomethylophilus alvus Mx1201 Provides Basis for Mutual Orthogonal Pyrrolysyl tRNA/Aminoacyl-tRNA Synthetase Pairs in Mammalian Cells.

Meineke B, Heimgärtner J, Lafranchi L, Elsässer SJ

ACS chemical biology 13 (11) 3087-3096 [2018-11-16; online 2018-10-12]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

PREQUAL: detecting non-homologous characters in sets of unaligned homologous sequences.

Whelan S, Irisarri I, Burki F

Bioinformatics 34 (22) 3929-3930 [2018-11-15; online 2018-06-06]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Structural Characterization of Agonist Binding to Protease-Activated Receptor 2 through Mutagenesis and Computational Modeling.

Kennedy AJ, Ballante F, Johansson JR, ..., Nordqvist A, Carlsson J

ACS pharmacology & translational science 1 (2) 119-133 [2018-11-09; online 2018-10-16]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

A Network-Based Cancer Drug Discovery: From Integrated Multi-Omics Approaches to Precision Medicine.

Turanli B, Karagoz K, Gulfidan G, ..., Mardinoglu A, Arga KY

Curr. Pharm. Des. 24 (32) 3778-3790 [2018-11-07; online 2018-11-07]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Forces drive basement membrane invasion in Caenorhabditis elegans.

Cáceres R, Bojanala N, Kelley LC, ..., Sherwood DR, Plastino J

Proc. Natl. Acad. Sci. U.S.A. 115 (45) 11537-11542 [2018-11-06; online 2018-10-22]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Accurate In Silico Modeling of Asymmetric Bilayers Based on Biophysical Principles.

Doktorova M, Weinstein H

Biophys. J. 115 (9) 1638-1643 [2018-11-06; online 2018-09-15]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Deciphering highly similar multigene family transcripts from Iso-Seq data with IsoCon.

Sahlin K, Tomaszkiewicz M, Makova KD, Medvedev P

Nat Commun 9 (1) 4601 [2018-11-02; online 2018-11-02]

Kristoffer Sahlin SciLifeLab Fellow

PubMed DOI Crossref

Nearly Neutral Evolution across the Drosophila melanogaster Genome.

Castellano D, James J, Eyre-Walker A

Mol. Biol. Evol. 35 (11) 2685-2694 [2018-11-01; online 2018-11-13]

DDLS Fellow Jennifer James

PubMed DOI Crossref

microRNA-205-5p is a modulator of insulin sensitivity that inhibits FOXO function.

Langlet F, Tarbier M, Haeusler RA, ..., Friedländer MR, Accili D

Mol Metab 17 (-) 49-60 [2018-11-00; online 2018-08-11]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Uncovering the regional localization of inhaled salmeterol retention in the lung.

Bäckström E, Hamm G, Nilsson A, ..., Goodwin RJA, Fridén M

Drug Deliv 25 (1) 838-845 [2018-11-00; online 2018-03-29]

Affiliated researcher

PubMed DOI Crossref

Transfection of crayfish hematopoietic tissue cells.

Shi H, Ruan L, Söderhäll I, Söderhäll K, Xu X

Dev. Comp. Immunol. 88 (-) 70-76 [2018-11-00; online 2018-07-09]

Affiliated researcher

DOI Crossref

QCM mass underestimation in molecular biotechnology: Proximity ligation assay for norovirus detection as a case study

Neumann F, Madaboosi N, Hernández-Neuta I, ..., Mecea V, Nilsson M

Sensors and Actuators B: Chemical 273 (-) 742-750 [2018-11-00; online 2018-11-00]

Affiliated researcher

PubMed DOI Crossref

How to minimize dye-induced perturbations while studying biomembrane structure and dynamics: PEG linkers as a rational alternative.

Mobarak E, Javanainen M, Kulig W, ..., Rog T, Vattulainen I

Biochim Biophys Acta Biomembr 1860 (11) 2436-2445 [2018-11-00; online 2018-07-18]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Gene-environment interaction of monoamine oxidase A in relation to antisocial behaviour: current and future directions.

Nilsson KW, Åslund C, Comasco E, Oreland L

J Neural Transm (Vienna) 125 (11) 1601-1626 [2018-11-00; online 2018-06-07]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

First report of an mcr-1-harboring Salmonella enterica subsp. enterica serotype 4,5,12:i:- strain isolated from blood of a patient in Switzerland.

Carroll LM, Zurfluh K, Jang H, ..., Stephan R, Guldimann C

Int. J. Antimicrob. Agents 52 (5) 740-741 [2018-11-00; online 2018-08-10]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Barcoded solid-phase RNA capture for Spatial Transcriptomics profiling in mammalian tissue sections.

Salmén F, Ståhl PL, Mollbrink A, ..., Frisén J, Lundeberg J

Nat Protoc 13 (11) 2501-2534 [2018-11-00; online 2018-10-26]

Sanja Vickovic SciLifeLab Fellow

DOI Crossref

Ribosome Profiling of Synechocystis Reveals Altered Ribosome Allocation at Carbon Starvation

Karlsen J, Asplund-Samuelsson J, Thomas Q, Jahn M, Hudson EP

mSystems 3 (5) - [2018-10-30; online 2018-10-30]

Paul Hudson SciLifeLab Fellow

PubMed DOI Crossref

Detection of post-translational modifications using solid-phase proximity ligation assay.

Oliveira FMS, Mereiter S, Lönn P, ..., Reis CA, Kamali-Moghaddam M

N Biotechnol 45 (-) 51-59 [2018-10-25; online 2017-10-31]

Affiliated researcher

PubMed DOI Crossref

Combination of phage and Gram-positive bacterial display of human antibody repertoires enables isolation of functional high affinity binders.

Hu FJ, Volk AL, Persson H, ..., Uhlen M, Rockberg J

N Biotechnol 45 (-) 80-88 [2018-10-25; online 2017-08-01]

Affiliated researcher

PubMed DOI Crossref

A myopic perspective on the future of protein diagnostics.

Landegren U, Al-Amin RA, Björkesten J

N Biotechnol 45 (-) 14-18 [2018-10-25; online 2018-01-05]

Affiliated researcher

PubMed DOI Crossref

A Robust Proton Flux (pHlux) Assay for Studying the Function and Inhibition of the Influenza A M2 Proton Channel.

Santner P, Martins JMDS, Laursen JS, ..., Willemoës M, Lindorff-Larsen K

Biochemistry 57 (41) 5949-5956 [2018-10-16; online 2018-10-03]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Chemoselective Probe Containing a Unique Bioorthogonal Cleavage Site for Investigation of Gut Microbiota Metabolism.

Garg N, Conway LP, Ballet C, ..., Löhr JM, Globisch D

Angew. Chem. Int. Ed. Engl. 57 (42) 13805-13809 [2018-10-15; online 2018-09-20]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Noninvasive Urine Biomarker Lateral Flow Immunoassay for Monitoring Active Onchocerciasis.

Shirey RJ, Globisch D, Eubanks LM, Hixon MS, Janda KD

ACS Infect Dis 4 (10) 1423-1431 [2018-10-12; online 2018-09-21]

Daniel Globisch SciLifeLab Fellow

DOI Crossref

Quantifying point-mutations in shotgun metagenomic data

Magesh S, Jonsson V, Bengtsson-Palme J

bioRxiv preprint - (-) - [2018-10-11; online 2018-10-11]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Growth of Cyanobacteria Is Constrained by the Abundance of Light and Carbon Assimilation Proteins.

Jahn M, Vialas V, Karlsen J, ..., Käll L, Hudson EP

Cell Reports 25 (2) 478-486.e8 [2018-10-09; online 2018-10-12]

Paul Hudson SciLifeLab Fellow

PubMed DOI Crossref

Rapid Isolation of the Mitoribosome from HEK Cells.

Aibara S, Andréll J, Singh V, Amunts A

J Vis Exp - (140) - [2018-10-04; online 2018-10-04]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Conceptual and empirical advances in Neotropical biodiversity research.

Antonelli A, Ariza M, Albert J, ..., Zizka A, Edwards SV

PeerJ 6 (-) e5644 [2018-10-04; online 2018-10-04]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Reconstitution of immune cell interactions in free-standing membranes.

Jenkins E, Santos AM, O'Brien-Ball C, ..., Eggeling C, Sezgin E

J. Cell. Sci. 132 (4) - [2018-10-02; online 2018-10-02]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Bacteriophages Synergize with the Gut Microbial Community To Combat Salmonella.

Hu YOO, Hugerth LW, Bengtsson C, ..., Du J, Engstrand L

mSystems 3 (5) - [2018-10-02; online 2018-10-02]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Opening leads to closing: Allosteric crosstalk between the activation and inactivation gates in KcsA.

Delemotte L

J. Gen. Physiol. 150 (10) 1356-1359 [2018-10-01; online 2018-08-24]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Determining the molecular basis of voltage sensitivity in membrane proteins.

Kasimova MA, Lindahl E, Delemotte L

J. Gen. Physiol. 150 (10) 1444-1458 [2018-10-01; online 2018-08-27]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

High Cell Density Perfusion Culture has a Maintained Exoproteome and Metabolome.

Zamani L, Lundqvist M, Zhang Y, ..., Rockberg J, Chotteau V

Biotechnol J 13 (10) e1800036 [2018-10-00; online 2018-07-13]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Genome-wide binding of transcription factor ZEB1 in triple-negative breast cancer cells.

Maturi V, Enroth S, Heldin CH, Moustakas A

J. Cell. Physiol. 233 (10) 7113-7127 [2018-10-00; online 2018-05-10]

Affiliated researcher

PubMed DOI Crossref

Genomes from uncultivated prokaryotes: a comparison of metagenome-assembled and single-amplified genomes.

Alneberg J, Karlsson CMG, Divne AM, ..., Andersson AF, Pinhassi J

Microbiome 6 (1) 173 [2018-09-28; online 2018-09-28]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

ESS: A Tool for Genome-Scale Quantification of Essentiality Score for Reaction/Genes in Constraint-Based Modeling.

Zhang C, Bidkhori G, Benfeitas R, ..., Uhlén M, Mardinoglu A

Front. Physiol. 9 (-) 1355 [2018-09-28; online 2018-09-28]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Bioanalytical advantages of a novel recombinant apyrase enzyme in ATP-based bioluminescence methods.

Pavankumar AR, Zelenin S, Lundin A, ..., Achour A, Russom A

Anal. Chim. Acta 1025 (-) 118-123 [2018-09-26; online 2018-04-26]

Affiliated researcher

PubMed DOI Crossref

Effects of Design Choices on the Stiffness of Wireframe DNA Origami Structures.

Benson E, Mohammed A, Rayneau-Kirkhope D, ..., Orponen P, Högberg B

ACS Nano 12 (9) 9291-9299 [2018-09-25; online 2018-09-06]

Erik Benson SciLifeLab Fellow

PubMed DOI Crossref

Maternal gut and breast milk microbiota affect infant gut antibiotic resistome and mobile genetic elements.

Pärnänen K, Karkman A, Hultman J, ..., Satokari R, Virta M

Nat Commun 9 (1) 3891 [2018-09-24; online 2018-09-24]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Characterization of different fat depots in NAFLD using inflammation-associated proteome, lipidome and metabolome.

Lovric A, Granér M, Bjornson E, ..., Mardinoglu A, Boren J

Sci Rep 8 (1) 14200 [2018-09-21; online 2018-09-21]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Meta-Analysis of Adiponectin as a Biomarker for the Detection of Metabolic Syndrome.

Liu Z, Liang S, Que S, ..., Zheng S, Mardinoglu A

Front. Physiol. 9 (-) 1238 [2018-09-19; online 2018-09-19]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Focal Adhesion Kinase and ROCK Signaling Are Switch-Like Regulators of Human Adipose Stem Cell Differentiation towards Osteogenic and Adipogenic Lineages.

Hyväri L, Ojansivu M, Juntunen M, ..., Miettinen S, Vanhatupa S

Stem Cells Int 2018 (-) 2190657 [2018-09-12; online 2018-09-12]

DDLS Fellow Kimmo Kartasalo

DOI Crossref

Phylogeny and Systematics of Kewa (Kewaceae)

Thulin M, Larsson A, Edwards EJ, Moore AJ

Systematic Botany 43 (3) 689-700 [2018-09-10; online 2018-09-10]

Affiliated researcher

PubMed DOI Crossref

Shedding of CD16 disassembles the NK cell immune synapse and boosts serial engagement of target cells.

Srpan K, Ambrose A, Karampatzakis A, ..., Önfelt B, Davis DM

J. Cell Biol. 217 (9) 3267-3283 [2018-09-03; online 2018-07-02]

Affiliated researcher

PubMed DOI Crossref

Promoter Usage and Dynamics in Vascular Smooth Muscle Cells Exposed to Fibroblast Growth Factor-2 or Interleukin-1β.

Alhendi AMN, Patrikakis M, Daub CO, ..., Arner E, Khachigian LM

Sci Rep 8 (1) 13164 [2018-09-03; online 2018-09-03]

Affiliated researcher

PubMed DOI Crossref

Neuronal Expression of Opioid Gene is Controlled by Dual Epigenetic and Transcriptional Mechanism in Human Brain.

Bazov I, Sarkisyan D, Kononenko O, ..., Yakovleva T, Bakalkin G

Cereb. Cortex 28 (9) 3129-3142 [2018-09-01; online 2017-10-03]

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Comparative analysis of tissue reconstruction algorithms for 3D histology.

Kartasalo K, Latonen L, Vihinen J, ..., Nykter M, Ruusuvuori P

Bioinformatics 34 (17) 3013-3021 [2018-09-01; online 2018-04-24]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

The pro-inflammatory role of platelets in cancer.

Olsson AK, Cedervall J

Platelets 29 (6) 569-573 [2018-09-00; online 2018-03-27]

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The downfall of TBA-354 - a possible explanation for its neurotoxicity via mass spectrometric imaging.

Ntshangase S, Shobo A, Kruger HG, ..., Govender T, Baijnath S

Xenobiotica 48 (9) 938-944 [2018-09-00; online 2017-10-13]

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The Protozoan Parasite Toxoplasma gondii Selectively Reprograms the Host Cell Translatome.

Leroux LP, Lorent J, Graber TE, ..., Larsson O, Jaramillo M

Infect. Immun. 86 (9) - [2018-09-00; online 2018-08-22]

Affiliated researcher

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Targeting ATR in cancer.

Lecona E, Fernandez-Capetillo O

Nat. Rev. Cancer 18 (9) 586-595 [2018-09-00; online 2018-06-15]

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Systematic overexpression study to find target enzymes enhancing production of terpenes in Synechocystis PCC 6803, using isoprene as a model compound.

Englund E, Shabestary K, Hudson EP, Lindberg P

Metab. Eng. 49 (-) 164-177 [2018-09-00; online 2018-07-17]

Paul Hudson SciLifeLab Fellow

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Survival of Campylobacter jejuni and Campylobacter coli water isolates in lake and well water.

Nilsson A, Johansson C, Skarp A, ..., Bertilsson S, Rautelin H

APMIS 126 (9) 762-770 [2018-09-00; online 2018-08-31]

Affiliated researcher

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Prognostic, predictive, and pharmacogenomic assessments of CDX2 refine stratification of colorectal cancer.

Bruun J, Sveen A, Barros R, ..., Almeida R, Lothe RA

Mol Oncol 12 (9) 1639-1655 [2018-09-00; online 2018-08-15]

Affiliated researcher

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Preparation of asymmetric phospholipid vesicles for use as cell membrane models.

Doktorova M, Heberle FA, Eicher B, ..., Pabst G, Marquardt D

Nat Protoc 13 (9) 2086-2101 [2018-09-00; online 2018-09-08]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Multi-ethnic genome-wide association study for atrial fibrillation.

Roselli C, Chaffin MD, Weng LC, ..., Lunetta KL, Ellinor PT

Nat. Genet. 50 (9) 1225-1233 [2018-09-00; online 2018-06-11]

Affiliated researcher

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Mechanisms for stalled replication fork stabilization: new targets for synthetic lethality strategies in cancer treatments.

Liao H, Ji F, Helleday T, Ying S

EMBO Rep. 19 (9) - [2018-09-00; online 2018-08-13]

Affiliated researcher

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Hypermethylation of MIR21 in CD4+ T cells from patients with relapsing-remitting multiple sclerosis associates with lower miRNA-21 levels and concomitant up-regulation of its target genes.

Ruhrmann S, Ewing E, Piket E, ..., Piehl F, Jagodic M

Mult. Scler. 24 (10) 1288-1300 [2018-09-00; online 2017-08-02]

Affiliated researcher

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Germline variation in the oxidative DNA repair genes NUDT1 and OGG1 is not associated with hereditary colorectal cancer or polyposis.

Mur P, Jemth AS, Bevc L, ..., Helleday T, Valle L

Hum. Mutat. 39 (9) 1214-1225 [2018-09-00; online 2018-07-04]

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Developing reduced SNP assays from whole-genome sequence data to estimate introgression in an organism with complex genetic patterns, the Iberian honeybee ( Apis mellifera iberiensis).

Henriques D, Parejo M, Vignal A, ..., Webster MT, Pinto MA

Evol Appl 11 (8) 1270-1282 [2018-09-00; online 2018-03-30]

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Detailed analysis of HTT repeat elements in human blood using targeted amplification-free long-read sequencing.

Höijer I, Tsai YC, Clark TA, ..., Gyllensten U, Ameur A

Hum. Mutat. 39 (9) 1262-1272 [2018-09-00; online 2018-07-12]

Affiliated researcher

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Characterization of a cold-active transglutaminase from a crayfish, Pacifastacus leniusculus.

Sirikharin R, Söderhäll I, Söderhäll K

Fish Shellfish Immunol. 80 (-) 546-549 [2018-09-00; online 2018-06-27]

Affiliated researcher

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Autoantibody profiling reveals four protein candidate autoantigens associated with systemic lupus erythematosus.

Frostegård J, Hellström C, Nilsson P, Frostegård AG, Ajeganova S

Lupus 27 (10) 1670-1678 [2018-09-00; online 2018-07-24]

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Assessment modalities of non-ionizing three-dimensional images for the quantification of facial morphology, symmetry, and appearance in cleft lip and palate: a systematic review.

Thierens LAM, De Roo NMC, De Pauw GAM, Brusselaers N

Int J Oral Maxillofac Surg 47 (9) 1095-1105 [2018-09-00; online 2018-06-05]

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An update on the role of type I interferons in systemic lupus erythematosus and Sjögren's syndrome.

Thorlacius GE, Wahren-Herlenius M, Rönnblom L

Curr Opin Rheumatol 30 (5) 471-481 [2018-09-00; online 2018-06-12]

Affiliated researcher

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A fine-needle aspiration-based protein signature discriminates benign from malignant breast lesions.

Franzén B, Kamali-Moghaddam M, Alexeyenko A, ..., Landegren U, Lewensohn R

Mol Oncol 12 (9) 1415-1428 [2018-09-00; online 2018-08-09]

Affiliated researcher

DOI Crossref

Top-Down Fabricated Silicon Nanowire Arrays for Field-Effect Detection of Prostate-Specific Antigen

Rani D, Pachauri V, Madaboosi N, ..., Conde JP, Ingebrandt S

ACS Omega 3 (8) 8471-8482 [2018-08-31; online 2018-08-00]

Affiliated researcher

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Ca2+-binding protein NECAB2 facilitates inflammatory pain hypersensitivity.

Zhang MD, Su J, Adori C, ..., Harkany T, Hökfelt T

J. Clin. Invest. 128 (9) 3757-3768 [2018-08-31; online 2018-07-30]

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Mapping the Interface of a GPCR Dimer: A Structural Model of the A2A Adenosine and D2 Dopamine Receptor Heteromer.

Borroto-Escuela DO, Rodriguez D, Romero-Fernandez W, ..., Fuxe K, Carlsson J

Front. Pharmacol. 9 (-) 829 [2018-08-30; online 2018-08-30]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Eleven percent intact PGM3 in a severely immunodeficient patient with a novel splice-site mutation, a case report.

Lundin KE, Wang Q, Hamasy A, ..., Ekwall O, Smith CIE

BMC Pediatr 18 (1) 285 [2018-08-29; online 2018-08-29]

Affiliated researcher

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Building of neomycin-nucleobase-amino acid conjugates for the inhibition of oncogenic miRNAs biogenesis.

Vo DD, Becquart C, Tran TPA, ..., Staedel C, Duca M

Org. Biomol. Chem. 16 (34) 6262-6274 [2018-08-29; online 2018-08-18]

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Statistical Analysis of Scanning Fluorescence Correlation Spectroscopy Data Differentiates Free from Hindered Diffusion.

Schneider F, Waithe D, Lagerholm BC, ..., Eggeling C, Fritzsche M

ACS Nano 12 (8) 8540-8546 [2018-08-28; online 2018-07-26]

Erdinc Sezgin SciLifeLab Fellow

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Metabolic reprogramming of acute lymphoblastic leukemia cells in response to glucocorticoid treatment.

Dyczynski M, Vesterlund M, Björklund AC, ..., Tamm KP, Nilsson R

Cell Death Dis 9 (9) 846 [2018-08-28; online 2018-08-28]

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DOI Crossref

Direct observation of rotation-coupled protein diffusion along DNA on the microsecond timescale

Marklund E, Amselem E, Kipper K, ..., Deindl S, Elf J

- - (-) - [2018-08-27; online 2018-08-27]

Emil Marklund SciLifeLab Fellow Sebastian Deindl

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A Protein-Based Encapsulation System with Calcium-Controlled Cargo Loading and Detachment.

Lizatović R, Assent M, Barendregt A, ..., Wennmalm S, André I

Angew. Chem. Int. Ed. Engl. 57 (35) 11334-11338 [2018-08-27; online 2018-07-30]

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Association of tamoxifen resistance and lipid reprogramming in breast cancer.

Hultsch S, Kankainen M, Paavolainen L, ..., Pietiäinen V, Kallioniemi O

BMC Cancer 18 (1) 850 [2018-08-24; online 2018-08-24]

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Stereotypic Immune System Development in Newborn Children.

Olin A, Henckel E, Chen Y, ..., Bohlin K, Brodin P

Cell 174 (5) 1277-1292.e14 [2018-08-23; online 2018-08-25]

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Transcriptional Convergence of Oligodendrocyte Lineage Progenitors during Development.

Marques S, van Bruggen D, Vanichkina DP, ..., Taft RJ, Castelo-Branco G

Dev. Cell 46 (4) 504-517.e7 [2018-08-20; online 2018-08-02]

Affiliated researcher

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Sulfonimidamides: Synthesis and Applications in Preparative Organic Chemistry

Nandi GC, Arvidsson PI

Adv. Synth. Catal. 360 (16) 2976-3001 [2018-08-17; online 2018-05-25]

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Role of Gln222 in Photoswitching of Aequorea Fluorescent Proteins: A Twisting and H-Bonding Affair?

Storti B, Margheritis E, Abbandonato G, ..., Nifosì R, Bizzarri R

ACS chemical biology 13 (8) 2082-2093 [2018-08-17; online 2018-06-19]

Affiliated researcher Ilaria Testa SciLifeLab Fellow

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Enhanced photon collection enables four dimensional fluorescence nanoscopy of living systems.

Masullo LA, Bodén A, Pennacchietti F, ..., Ratz M, Testa I

Nat Commun 9 (1) 3281 [2018-08-16; online 2018-08-16]

Affiliated researcher Ilaria Testa SciLifeLab Fellow

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The binding of Chp2's chromodomain to methylated H3K9 is essential for Chp2's role in heterochromatin assembly in fission yeast.

Maksimov V, Oya E, Tanaka M, ..., Bjerling P, Nakayama JI

PLoS ONE 13 (8) e0201101 [2018-08-15; online 2018-08-15]

Affiliated researcher

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Surface Display of Small Affinity Proteins on Synechocystis sp. Strain PCC 6803 Mediated by Fusion to the Major Type IV Pilin PilA1.

Cengic I, Uhlén M, Hudson EP

J. Bacteriol. 200 (16) - [2018-08-15; online 2018-07-25]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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Characterization of avian influenza virus attachment patterns to human and pig tissues.

Eriksson P, Lindskog C, Engholm E, ..., Jourdain E, Ellström P

Sci Rep 8 (1) 12215 [2018-08-15; online 2018-08-15]

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DOI Crossref

A Decomposition Method for Global Evaluation of Shannon Entropy and Local Estimations of Algorithmic Complexity

Zenil H, Hernández-Orozco S, Kiani N, ..., Rueda-Toicen A, Tegnér J

Entropy 20 (8) 605 [2018-08-15; online 2018-08-15]

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Novel Autotrophic Organisms Contribute Significantly to the Internal Carbon Cycling Potential of a Boreal Lake.

Peura S, Buck M, Aalto SL, ..., Nykänen H, Eiler A

MBio 9 (4) - [2018-08-14; online 2018-08-14]

Sari Peura SciLifeLab Fellow

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Predicting drug permeability through skin using molecular dynamics simulation.

Lundborg M, Wennberg CL, Narangifard A, Lindahl E, Norlén L

J Control Release 283 (-) 269-279 [2018-08-10; online 2018-06-01]

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Stationary and portable sequencing-based approaches for tracing wastewater contamination in urban stormwater systems.

Hu YOO, Ndegwa N, Alneberg J, ..., Fagerberg J, Andersson AF

Sci Rep 8 (1) 11907 [2018-08-09; online 2018-08-09]

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SURGE complex of Plasmodium falciparum in the rhoptry-neck (SURFIN4.2-RON4-GLURP) contributes to merozoite invasion.

Quintana MDP, Ch'ng JH, Zandian A, ..., Chan S, Wahlgren M

PLoS ONE 13 (8) e0201669 [2018-08-09; online 2018-08-09]

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Proteomic Biomarkers for Incident Aortic Stenosis Requiring Valvular Replacement.

Ljungberg J, Janiec M, Bergdahl IA, ..., Fall T, Söderberg S

Circulation 138 (6) 590-599 [2018-08-07; online 2018-03-01]

Affiliated researcher

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New enzymatic and mass spectrometric methodology for the selective investigation of gut microbiota-derived metabolites.

Ballet C, Correia MSP, Conway LP, ..., Löhr JM, Globisch D

Chem Sci 9 (29) 6233-6239 [2018-08-07; online 2018-06-28]

Affiliated researcher Daniel Globisch SciLifeLab Fellow Sebastian Deindl

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Evaluation of the Therapeutic Potential of a HER3-Binding Affibody Construct TAM-HER3 in Comparison with a Monoclonal Antibody, Seribantumab.

Orlova A, Bass TZ, Rinne SS, ..., Tolmachev V, Ståhl S

Mol. Pharm. 15 (8) 3394-3403 [2018-08-06; online 2018-07-25]

Affiliated researcher

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Mitochondrial genomes reveal an east to west cline of steppe ancestry in Corded Ware populations.

Juras A, Chyleński M, Ehler E, ..., Jakobsson M, Kośko A

Sci Rep 8 (1) 11603 [2018-08-02; online 2018-08-02]

Affiliated researcher

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A colorimetric assay to rapidly determine the activities of lytic polysaccharide monooxygenases.

Wang D, Li J, Wong ACY, Aachmann FL, Hsieh YSY

Biotechnol Biofuels 11 (-) 215 [2018-08-02; online 2018-08-02]

Affiliated researcher

DOI Crossref

Sulfonyl Fluorides (SFs): More Than Click Reagents?

Chinthakindi PK, Arvidsson PI

Eur. J. Org. Chem. 2018 (27-28) 3648-3666 [2018-08-01; online 2018-07-06]

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Investigation of viable taxa in the deep terrestrial biosphere suggests high rates of nutrient recycling.

Lopez-Fernandez M, Broman E, Turner S, ..., Bertilsson S, Dopson M

FEMS Microbiol. Ecol. 94 (8) - [2018-08-01; online 2018-06-23]

Affiliated researcher

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Evolution of the growth hormone, prolactin, prolactin 2 and somatolactin family.

Ocampo Daza D, Larhammar D

Gen. Comp. Endocrinol. 264 (-) 94-112 [2018-08-01; online 2018-01-12]

Affiliated researcher

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Different menopausal hormone regimens and risk of breast cancer.

Brusselaers N, Tamimi RM, Konings P, ..., Adami HO, Lagergren J

Ann. Oncol. 29 (8) 1771-1776 [2018-08-01; online 2018-06-20]

Affiliated researcher

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CD93 promotes β1 integrin activation and fibronectin fibrillogenesis during tumor angiogenesis.

Lugano R, Vemuri K, Yu D, ..., Dejana E, Dimberg A

J. Clin. Invest. 128 (8) 3280-3297 [2018-08-01; online 2018-06-25]

Affiliated researcher

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An imidazole based H-Phe-Phe-NH 2 peptidomimetic with anti-allodynic effect in spared nerve injury mice.

Skogh A, Lesniak A, Sköld C, ..., Hallberg M, Sandström A

Bioorg. Med. Chem. Lett. 28 (14) 2446-2450 [2018-08-01; online 2018-06-15]

Affiliated researcher

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The environmental neurotoxin β-N-methylamino-L-alanine inhibits melatonin synthesis in primary pinealocytes and a rat model.

Pierozan P, Andersson M, Brandt I, Karlsson O

Journal of pineal research 65 (1) e12488 [2018-08-00; online 2018-04-06]

Oskar Karlsson SciLifeLab Fellow

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The PDGF/PDGFR pathway as a drug target.

Papadopoulos N, Lennartsson J

Mol. Aspects Med. 62 (-) 75-88 [2018-08-00; online 2017-11-15]

Affiliated researcher

PubMed DOI Crossref

Structure and function of the global topsoil microbiome.

Bahram M, Hildebrand F, Forslund SK, ..., Tedersoo L, Bork P

Nature 560 (7717) 233-237 [2018-08-00; online 2018-08-01]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Scavenging of superoxide by a membrane-bound superoxide oxidase.

Lundgren CAK, Sjöstrand D, Biner O, ..., von Ballmoos C, Högbom M

Nat. Chem. Biol. 14 (8) 788-793 [2018-08-00; online 2018-06-18]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Role of proteoglycans in neuro-inflammation and central nervous system fibrosis.

Heindryckx F, Li JP

Matrix Biol. 68-69 (-) 589-601 [2018-08-00; online 2018-01-31]

Affiliated researcher

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RNA velocity of single cells.

La Manno G, Soldatov R, Zeisel A, ..., Linnarsson S, Kharchenko PV

Nature 560 (7719) 494-498 [2018-08-00; online 2018-08-08]

Affiliated researcher

PubMed DOI Crossref

Plasmablast antibody repertoires in elderly influenza vaccine responders exhibit restricted diversity but increased breadth of binding across influenza strains.

Ju CH, Blum LK, Kongpachith S, ..., Davis MM, Robinson WH

Clin. Immunol. 193 (-) 70-79 [2018-08-00; online 2018-02-02]

Affiliated researcher

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Plasma Protein Profiling Reveal Osteoprotegerin as a Marker of Prognostic Impact for Colorectal Cancer.

Birgisson H, Tsimogiannis K, Freyhult E, Kamali-Moghaddam M

Transl Oncol 11 (4) 1034-1043 [2018-08-00; online 2018-07-04]

Affiliated researcher

PubMed DOI Crossref

Modulation of TGFβ/Smad signaling by the small GTPase RhoB.

Livitsanou M, Vasilaki E, Stournaras C, Kardassis D

Cell. Signal. 48 (-) 54-63 [2018-08-00; online 2018-04-26]

Affiliated researcher

PubMed DOI Crossref

Memory T cells specific to citrullinated α-enolase are enriched in the rheumatic joint.

Pieper J, Dubnovitsky A, Gerstner C, ..., Achour A, Malmström V

J. Autoimmun. 92 (-) 47-56 [2018-08-00; online 2018-05-28]

Affiliated researcher

PubMed DOI Crossref

Longitudinal changes in persistent organic pollutants (POPs) from 2001 to 2009 in a sample of elderly Swedish men and women.

Stubleski J, Lind L, Salihovic S, Lind PM, Kärrman A

Environ. Res. 165 (-) 193-200 [2018-08-00; online 2018-04-30]

Affiliated researcher

DOI Crossref

Interspecific variation in ploidy as a key plant trait outlining local extinction risks and community patterns in fragmented landscapes

Plue J, Kimberley A, Slotte T

Funct Ecol 32 (8) 2095-2106 [2018-08-00; online 2018-05-22]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Human skin barrier structure and function analyzed by cryo-EM and molecular dynamics simulation.

Lundborg M, Narangifard A, Wennberg CL, ..., Daneholt B, Norlén L

J. Struct. Biol. 203 (2) 149-161 [2018-08-00; online 2018-04-24]

Affiliated researcher

PubMed DOI Crossref

Fast reversibly photoswitching red fluorescent proteins for live-cell RESOLFT nanoscopy.

Pennacchietti F, Serebrovskaya EO, Faro AR, ..., Mishin AS, Testa I

Nat. Methods 15 (8) 601-604 [2018-08-00; online 2018-07-09]

Affiliated researcher Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Ether cross-link formation in the R2-like ligand-binding oxidase.

Griese JJ, Branca RMM, Srinivas V, Högbom M

J. Biol. Inorg. Chem. 23 (6) 879-886 [2018-08-00; online 2018-06-26]

Affiliated researcher

PubMed DOI Crossref

Epigenetics in pediatric acute lymphoblastic leukemia.

Nordlund J, Syvänen AC

Semin. Cancer Biol. 51 (-) 129-138 [2018-08-00; online 2017-09-05]

Affiliated researcher

PubMed DOI Crossref

Epigenetics in multiple myeloma: From mechanisms to therapy.

Alzrigat M, Párraga AA, Jernberg-Wiklund H

Semin. Cancer Biol. 51 (-) 101-115 [2018-08-00; online 2017-09-27]

Affiliated researcher

PubMed DOI Crossref

Epigenetic deregulation in chronic lymphocytic leukemia: Clinical and biological impact.

Mansouri L, Wierzbinska JA, Plass C, Rosenquist R

Semin. Cancer Biol. 51 (-) 1-11 [2018-08-00; online 2018-02-07]

Affiliated researcher

PubMed DOI Crossref

Disruption of A2AR-D2R Heteroreceptor Complexes After A2AR Transmembrane 5 Peptide Administration Enhances Cocaine Self-Administration in Rats.

Borroto-Escuela DO, Wydra K, Li X, ..., Filip M, Fuxe K

Mol. Neurobiol. 55 (8) 7038-7048 [2018-08-00; online 2018-01-30]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

De novo KCNA1 variants in the PVP motif cause infantile epileptic encephalopathy and cognitive impairment similar to recurrent KCNA2 variants.

Rogers A, Golumbek P, Cellini E, ..., Thuresson AC, Gurnett CA

Am. J. Med. Genet. A 176 (8) 1748-1752 [2018-08-00; online 2018-07-28]

Affiliated researcher

PubMed DOI Crossref

DNA methylation as a genomic marker of exposure to chemical and environmental agents.

Meehan RR, Thomson JP, Lentini A, Nestor CE, Pennings S

Curr Opin Chem Biol 45 (-) 48-56 [2018-08-00; online 2018-03-02]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Critical knowledge gaps and research needs related to the environmental dimensions of antibiotic resistance.

Larsson DGJ, Andremont A, Bengtsson-Palme J, ..., Wellington EM, Wernersson AS

Environ Int 117 (-) 132-138 [2018-08-00; online 2018-05-07]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Consensus guidelines for the use and interpretation of angiogenesis assays.

Nowak-Sliwinska P, Alitalo K, Allen E, ..., Yoder MC, Griffioen AW

Angiogenesis 21 (3) 425-532 [2018-08-00; online 2018-05-17]

Affiliated researcher

PubMed DOI Crossref

Common variation near IRF6 is associated with IFN-β-induced liver injury in multiple sclerosis.

Kowalec K, Wright GEB, Drögemöller BI, ..., Tremlett H, Carleton BC

Nat. Genet. 50 (8) 1081-1085 [2018-08-00; online 2018-07-16]

Affiliated researcher

PubMed DOI Crossref

Characterization of Swedish Campylobacter coli clade 2 and clade 3 water isolates.

Nilsson A, Skarp A, Johansson C, ..., Engstrand L, Rautelin H

Microbiologyopen 7 (4) e00583 [2018-08-00; online 2018-02-09]

Affiliated researcher

PubMed DOI Crossref

Changing the site energy of per-614 in the Peridinin-chlorophyll a-protein does not alter its capability of chlorophyll triplet quenching.

Agostini A, Niklas J, Schulte T, ..., Lubitz W, Carbonera D

Biochim Biophys Acta Bioenerg 1859 (8) 612-618 [2018-08-00; online 2018-05-19]

Affiliated researcher

PubMed DOI Crossref

Changes in markers of liver function in relation to changes in perfluoroalkyl substances - A longitudinal study.

Salihovic S, Stubleski J, Kärrman A, ..., Lind L, Lind PM

Environ Int 117 (-) 196-203 [2018-08-00; online 2018-05-10]

Affiliated researcher

PubMed DOI Crossref

Algorithmically probable mutations reproduce aspects of evolution, such as convergence rate, genetic memory and modularity.

Hernández-Orozco S, Kiani NA, Zenil H

R Soc Open Sci 5 (8) 180399 [2018-08-00; online 2018-08-29]

Affiliated researcher

PubMed DOI Crossref

Acute sleep loss results in tissue-specific alterations in genome-wide DNA methylation state and metabolic fuel utilization in humans.

Cedernaes J, Schönke M, Westholm JO, ..., Zierath JR, Benedict C

Sci Adv 4 (8) eaar8590 [2018-08-00; online 2018-08-22]

Affiliated researcher

PubMed DOI Crossref

The microbial metabolite trimethylamine-N-oxide in association with inflammation and microbial dysregulation in three HIV cohorts at various disease stages.

Missailidis C, Neogi U, Stenvinkel P, ..., Nowak P, Bergman P

AIDS 32 (12) 1589-1598 [2018-07-31; online 2018-04-06]

Affiliated researcher

PubMed DOI Crossref

The Tumor Suppressor MIG6 Controls Mitotic Progression and the G2/M DNA Damage Checkpoint by Stabilizing the WEE1 Kinase.

Sasaki M, Terabayashi T, Weiss SM, Ferby I

Cell Reports 24 (5) 1278-1289 [2018-07-31; online 2018-08-02]

Affiliated researcher

PubMed DOI Crossref

RAD Sequencing and a Hybrid Antarctic Fur Seal Genome Assembly Reveal Rapidly Decaying Linkage Disequilibrium, Global Population Structure and Evidence for Inbreeding.

Humble E, Dasmahapatra KK, Martinez-Barrio A, ..., Wolf JBW, Hoffman JI

G3 8 (8) 2709-2722 [2018-07-31; online 2018-07-31]

Affiliated researcher

PubMed DOI Crossref

BARM and BalticMicrobeDB, a reference metagenome and interface to meta-omic data for the Baltic Sea.

Alneberg J, Sundh J, Bennke C, ..., Labrenz M, Andersson AF

Sci Data 5 (-) 180146 [2018-07-31; online 2018-07-31]

DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Switch-like PKA responses in the nucleus of striatal neurons.

Yapo C, Nair AG, Hellgren Kotaleski J, Vincent P, Castro LRV

J. Cell. Sci. 131 (14) - [2018-07-27; online 2018-07-27]

Affiliated researcher

PubMed DOI Crossref

PR interval genome-wide association meta-analysis identifies 50 loci associated with atrial and atrioventricular electrical activity.

van Setten J, Brody JA, Jamshidi Y, ..., Arking DE, Sotoodehnia N

Nat Commun 9 (1) 2904 [2018-07-25; online 2018-07-25]

Affiliated researcher

PubMed DOI Crossref

Analysis of public RNA-sequencing data reveals biological consequences of genetic heterogeneity in cell line populations.

Fasterius E, Al-Khalili Szigyarto C

Sci Rep 8 (1) 11226 [2018-07-25; online 2018-07-25]

Affiliated researcher

DOI Crossref

A Review of Graph and Network Complexity from an Algorithmic Information Perspective

Zenil H, Kiani N, Tegnér J

Entropy 20 (8) 551 [2018-07-25; online 2018-07-25]

Affiliated researcher

PubMed DOI Crossref

Whole genome SNP-associated signatures of local adaptation in honeybees of the Iberian Peninsula.

Henriques D, Wallberg A, Chávez-Galarza J, ..., Webster MT, Pinto MA

Sci Rep 8 (1) 11145 [2018-07-24; online 2018-07-24]

Affiliated researcher

PubMed DOI Crossref

A patient-derived xenograft pre-clinical trial reveals treatment responses and a resistance mechanism to karonudib in metastatic melanoma.

Einarsdottir BO, Karlsson J, Söderberg EMV, ..., Helleday T, Nilsson JA

Cell Death Dis 9 (8) 810 [2018-07-24; online 2018-07-24]

Affiliated researcher

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Targeted Repression of Essential Genes To Arrest Growth and Increase Carbon Partitioning and Biofuel Titers in Cyanobacteria.

Shabestary K, Anfelt J, Ljungqvist E, ..., Yao L, Hudson EP

ACS Synth. Biol. 7 (7) 1669-1675 [2018-07-20; online 2018-06-08]

Affiliated researcher Paul Hudson SciLifeLab Fellow

DOI Crossref

Symmetry and Correspondence of Algorithmic Complexity over Geometric, Spatial and Topological Representations

Zenil H, Kiani N, Tegnér J

Entropy 20 (7) 534 [2018-07-18; online 2018-07-18]

Affiliated researcher

PubMed DOI Crossref

Metabolic Network-Based Identification and Prioritization of Anticancer Targets Based on Expression Data in Hepatocellular Carcinoma.

Bidkhori G, Benfeitas R, Elmas E, ..., Nielsen J, Mardinoglu A

Front. Physiol. 9 (-) 916 [2018-07-17; online 2018-07-17]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Heterogeneity and interplay of the extracellular vesicle small RNA transcriptome and proteome.

Sork H, Corso G, Krjutskov K, ..., Mäger I, El Andaloussi S

Sci Rep 8 (1) 10813 [2018-07-17; online 2018-07-17]

Affiliated researcher

PubMed DOI Crossref

Intravital imaging-based analysis tools for vessel identification and assessment of concurrent dynamic vascular events.

Honkura N, Richards M, Laviña B, ..., Betsholtz C, Claesson-Welsh L

Nat Commun 9 (1) 2746 [2018-07-16; online 2018-07-16]

Affiliated researcher

PubMed DOI Crossref

SECAPR-a bioinformatics pipeline for the rapid and user-friendly processing of targeted enriched Illumina sequences, from raw reads to alignments.

Andermann T, Cano Á, Zizka A, Bacon C, Antonelli A

PeerJ 6 (-) e5175 [2018-07-13; online 2018-07-13]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Genome-wide association study of coronary artery disease among individuals with diabetes: the UK Biobank.

Fall T, Gustafsson S, Orho-Melander M, Ingelsson E

Diabetologia - (-) - [2018-07-12; online 2018-07-12]

Affiliated researcher

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Discovery of a Series of Indole-2 Carboxamides as Selective Secreted Phospholipase A 2 Type X (sPLA2-X) Inhibitors.

Knerr L, Giordanetto F, Nordberg P, ..., Roth RG, Ahlqvist M

ACS Med. Chem. Lett. 9 (7) 594-599 [2018-07-12; online 2018-06-23]

Affiliated researcher

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Design of Selective sPLA 2-X Inhibitor (-)-2-{2-[Carbamoyl-6-(trifluoromethoxy)-1H-indol-1-yl]pyridine-2-yl}propanoic Acid.

Giordanetto F, Knerr L, Nordberg P, ..., Jansen F, Ahlqvist M

ACS Med. Chem. Lett. 9 (7) 600-605 [2018-07-12; online 2018-06-23]

Affiliated researcher

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Tamoxifen-Induced Apoptosis of MCF-7 Cells via GPR30/PI3K/MAPKs Interactions: Verification by ODE Modeling and RNA Sequencing.

Rouhimoghadam M, Safarian S, Carroll JS, Sheibani N, Bidkhori G

Front. Physiol. 9 (-) 907 [2018-07-11; online 2018-07-11]

Affiliated researcher

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Nanoscale Spatiotemporal Diffusion Modes Measured by Simultaneous Confocal and Stimulated Emission Depletion Nanoscopy Imaging.

Schneider F, Waithe D, Galiani S, ..., Sezgin E, Eggeling C

Nano Lett. 18 (7) 4233-4240 [2018-07-11; online 2018-06-19]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Rare Copy Number Variants in Array-Based Comparative Genomic Hybridization in Early-Onset Skeletal Fragility.

Costantini A, Skarp S, Kämpe A, ..., Lindstrand A, Mäkitie O

Front Endocrinol (Lausanne) 9 (-) 380 [2018-07-10; online 2018-07-10]

Affiliated researcher

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Rapid Phenotypic Antibiotic Susceptibility Testing of Uropathogens Using Optical Signal Analysis on the Nanowell Slide.

Veses-Garcia M, Antypas H, Löffler S, ..., Andersson-Svahn H, Richter-Dahlfors A

Front Microbiol 9 (-) 1530 [2018-07-10; online 2018-07-10]

Affiliated researcher

PubMed DOI Crossref

Changes in brain architecture are consistent with altered fear processing in domestic rabbits.

Brusini I, Carneiro M, Wang C, ..., Fredrikson M, Andersson L

Proc. Natl. Acad. Sci. U.S.A. 115 (28) 7380-7385 [2018-07-10; online 2018-06-25]

Affiliated researcher

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Aβ under stress: the effects of acidosis, Cu 2+-binding, and oxidation on amyloid β-peptide dimers.

Liao Q, Owen MC, Bali S, Barz B, Strodel B

Chem. Commun. (Camb.) 54 (56) 7766-7769 [2018-07-10; online 2018-06-28]

Affiliated researcher

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Epidermal Growth Factor Receptor Extracellular Domain Mutations in Glioblastoma Present Opportunities for Clinical Imaging and Therapeutic Development.

Binder ZA, Thorne AH, Bakas S, ..., Furnari FB, O'Rourke DM

Cancer Cell 34 (1) 163-177.e7 [2018-07-09; online 2018-07-11]

Affiliated researcher

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The diversity of uncharacterized antibiotic resistance genes can be predicted from known gene variants-but not always.

Bengtsson-Palme J

Microbiome 6 (1) 125 [2018-07-07; online 2018-07-07]

DDLS Fellow Johan Bengtsson-Palme

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Primary glioblastoma cells for precision medicine: a quantitative portrait of genomic (in)stability during the first 30 passages.

Baskaran S, Mayrhofer M, Kultima HG, ..., Isaksson A, Nelander S

Neuro-oncology 20 (8) 1080-1091 [2018-07-05; online 2018-02-21]

Affiliated researcher

PubMed DOI Crossref

DNA Replication Determines Timing of Mitosis by Restricting CDK1 and PLK1 Activation.

Lemmens B, Hegarat N, Akopyan K, ..., Hochegger H, Lindqvist A

Mol. Cell 71 (1) 117-128.e3 [2018-07-05; online 2018-06-28]

Affiliated researcher

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Multimodal Chemical Imaging of Amyloid Plaque Polymorphism Reveals Aβ Aggregation Dependent Anionic Lipid Accumulations and Metabolism.

Michno W, Kaya I, Nyström S, ..., Zetterberg H, Hanrieder J

Anal. Chem. 90 (13) 8130-8138 [2018-07-03; online 2018-06-19]

SciLifeLab Fellow Wojciech Michno

DOI Crossref

Morphological and genetic variation of Fucus in the eastern Gulf of Bothnia, northern Baltic Sea

Rinne H, Björkman U, Sjöqvist C, Salovius-Laurén S, Mattila J

European Journal of Phycology 53 (3) 369-380 [2018-07-03; online 2018-05-17]

Affiliated researcher

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Changes in plasma levels of perfluoroalkyl substances (PFASs) are related to increase in carotid intima-media thickness over 10 years - a longitudinal study.

Lind PM, Salihovic S, Stubleski J, Kärrman A, Lind L

Environ Health 17 (1) 59 [2018-07-03; online 2018-07-03]

Affiliated researcher

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3D Maps of Mineral Composition and Hydroxyapatite Orientation in Fossil Bone Samples Obtained by X-ray Diffraction Computed Tomography.

Mürer FK, Sanchez S, Álvarez-Murga M, ..., Bech M, Breiby DW

Sci Rep 8 (1) 10052 [2018-07-03; online 2018-07-03]

Affiliated researcher

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Inhibition of integrin α Vβ6 changes fibril thickness of stromal collagen in experimental carcinomas.

Olof Olsson P, Gustafsson R, Salnikov AV, ..., Heldin NE, Rubin K

Cell Commun. Signal 16 (1) 36 [2018-07-02; online 2018-07-02]

Affiliated researcher

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Human Immunodeficiency Virus-Infected Women Have High Numbers of CD103-CD8+ T Cells Residing Close to the Basal Membrane of the Ectocervical Epithelium.

Gibbs A, Buggert M, Edfeldt G, ..., Broliden K, Tjernlund A

J. Infect. Dis. 218 (3) 453-465 [2018-07-02; online 2017-12-23]

Affiliated researcher

PubMed DOI Crossref

EviNet: a web platform for network enrichment analysis with flexible definition of gene sets.

Jeggari A, Alekseenko Z, Petrov I, ..., Ericson J, Alexeyenko A

Nucleic Acids Res. 46 (W1) W163-W170 [2018-07-02; online 2018-06-13]

Affiliated researcher

PubMed DOI Crossref

SETD2 Is Recurrently Mutated in Whole-Exome Sequenced Canine Osteosarcoma.

Sakthikumar S, Elvers I, Kim J, ..., Marinescu VD, Lindblad-Toh K

Cancer Res. 78 (13) 3421-3431 [2018-07-01; online 2018-05-03]

Affiliated researcher

PubMed DOI Crossref

Genome Evolution of Bartonellaceae Symbionts of Ants at the Opposite Ends of the Trophic Scale.

Bisch G, Neuvonen MM, Pierce NE, ..., Lukasik P, Andersson SGE

Genome Biol Evol 10 (7) 1687-1704 [2018-07-01; online 2018-07-10]

Affiliated researcher

PubMed DOI Crossref

Formation of Immune Complexes with a Tetanus-Derived B Cell Epitope Boosts Human T Cell Responses to Covalently Linked Peptides in an Ex Vivo Blood Loop System.

Fletcher EAK, van Maren W, Cordfunke R, ..., Drijfhout JW, Mangsbo SM

J. Immunol. 201 (1) 87-97 [2018-07-01; online 2018-05-11]

Affiliated researcher

PubMed DOI Crossref

A synthetic diphosphoinositol phosphate analogue of inositol trisphosphate.

Riley AM, Unterlass J, Konieczny V, ..., Helleday T, Potter BVL

Med. Chem. Commun. 9 (7) 1105-1113 [2018-07-01; online 2018-06-04]

Affiliated researcher

PubMed DOI Crossref

Transplantation of macroencapsulated human islets within the bioartificial pancreas βAir to patients with type 1 diabetes mellitus.

Carlsson PO, Espes D, Sedigh A, ..., Olerud J, Korsgren O

American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons 18 (7) 1735-1744 [2018-07-00; online 2018-02-02]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

The vaginal microbiome amplifies sex hormone-associated cyclic changes in cervicovaginal inflammation and epithelial barrier disruption.

Bradley F, Birse K, Hasselrot K, ..., Broliden K, Burgener AD

Am. J. Reprod. Immunol. 80 (1) e12863 [2018-07-00; online 2018-04-30]

Affiliated researcher

PubMed DOI Crossref

The Lsm1-7/Pat1 complex binds to stress-activated mRNAs and modulates the response to hyperosmotic shock.

Garre E, Pelechano V, Sánchez Del Pino M, Alepuz P, Sunnerhagen P

PLoS Genet 14 (7) e1007563 [2018-07-00; online 2018-07-30]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

The STAT4 SLE risk allele rs7574865[T] is associated with increased IL-12-induced IFN-γ production in T cells from patients with SLE.

Hagberg N, Joelsson M, Leonard D, ..., Bryceson YT, Rönnblom L

Ann. Rheum. Dis. 77 (7) 1070-1077 [2018-07-00; online 2018-02-23]

Affiliated researcher

PubMed DOI Crossref

Selective concentration for ciprofloxacin resistance in Escherichia coli grown in complex aquatic bacterial biofilms.

Kraupner N, Ebmeyer S, Bengtsson-Palme J, ..., Flach CF, Larsson DGJ

Environ Int 116 (-) 255-268 [2018-07-00; online 2018-04-25]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Oak genome reveals facets of long lifespan.

Plomion C, Aury JM, Amselem J, ..., Kremer A, Salse J

Nat Plants 4 (7) 440-452 [2018-07-00; online 2018-06-18]

Affiliated researcher

PubMed DOI Crossref

Novel gene variants associated with cardiovascular disease in systemic lupus erythematosus and rheumatoid arthritis.

Leonard D, Svenungsson E, Dahlqvist J, ..., Criswell LA, Rönnblom L

Ann. Rheum. Dis. 77 (7) 1063-1069 [2018-07-00; online 2018-03-07]

Affiliated researcher

PubMed DOI Crossref

Molecular allergen profiling in horses by microarray reveals Fag e 2 from buckwheat as a frequent sensitizer.

Einhorn L, Hofstetter G, Brandt S, ..., Pali-Schöll I, Jensen-Jarolim E

Allergy 73 (7) 1436-1446 [2018-07-00; online 2018-02-27]

Affiliated researcher

PubMed DOI Crossref

Mining the Human Tissue Proteome for Protein Citrullination.

Lee CY, Wang D, Wilhelm M, ..., Hahne H, Kuster B

Mol. Cell Proteomics 17 (7) 1378-1391 [2018-07-00; online 2018-04-02]

Affiliated researcher

DOI Crossref

Intra-droplet acoustic particle focusing: simulations and experimental observations

Fornell A, Garofalo F, Nilsson J, Bruus H, Tenje M

Microfluid Nanofluid 22 (7) - [2018-07-00; online 2018-06-28]

Affiliated researcher

PubMed DOI Crossref

Infection with a Brazilian isolate of Zika virus generates RIG-I stimulatory RNA and the viral NS5 protein blocks type I IFN induction and signaling.

Hertzog J, Dias Junior AG, Rigby RE, ..., Kohl A, Rehwinkel J

Eur. J. Immunol. 48 (7) 1120-1136 [2018-07-00; online 2018-04-06]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Immune cell contexture in the bone marrow tumor microenvironment impacts therapy response in CML.

Brück O, Blom S, Dufva O, ..., Pellinen T, Mustjoki S

Leukemia 32 (7) 1643-1656 [2018-07-00; online 2018-06-20]

Affiliated researcher

PubMed DOI Crossref

Identification of inhibitors of Tartrate-resistant acid phosphatase (TRAP/ACP5) activity by small-molecule screening.

Reithmeier A, Lundbäck T, Haraldsson M, ..., Gustavsson AL, Andersson G

Chem Biol Drug Des 92 (1) 1255-1271 [2018-07-00; online 2018-03-30]

Affiliated researcher

PubMed DOI Crossref

High speed of fork progression induces DNA replication stress and genomic instability.

Maya-Mendoza A, Moudry P, Merchut-Maya JM, ..., Strauss R, Bartek J

Nature 559 (7713) 279-284 [2018-07-00; online 2018-06-27]

Affiliated researcher

DOI Crossref

Genome-wide expression analysis suggests a role for jasmonates in the resistance to blue mold in apple

Ahmadi-Afzadi M, Orsel M, Pelletier S, ..., Nybom H, Renou JP

Plant Growth Regul 85 (3) 375-387 [2018-07-00; online 2018-04-18]

Affiliated researcher

PubMed DOI Crossref

Four evolutionary trajectories underlie genetic intratumoral variation in childhood cancer.

Karlsson J, Valind A, Holmquist Mengelbier L, ..., Bexell D, Gisselsson D

Nat. Genet. 50 (7) 944-950 [2018-07-00; online 2018-06-04]

Affiliated researcher

PubMed DOI Crossref

Demographic expansion and genetic load of the halophyte model plant Eutrema salsugineum.

Wang XJ, Hu QJ, Guo XY, ..., Lascoux M, Liu JQ

Mol. Ecol. 27 (14) 2943-2955 [2018-07-00; online 2018-06-22]

Affiliated researcher

PubMed DOI Crossref

Childhood Bereavement and Lower Stress Resilience in Late Adolescence.

Kennedy B, Chen R, Valdimarsdóttir U, ..., Fang F, Fall K

J Adolesc Health 63 (1) 108-114 [2018-07-00; online 2018-04-30]

Affiliated researcher

PubMed DOI Crossref

Cannabinoid Type 1 Receptors Are Upregulated During Acute Activation of Brown Adipose Tissue.

Lahesmaa M, Eriksson O, Gnad T, ..., Virtanen KA, Nuutila P

Diabetes 67 (7) 1226-1236 [2018-07-00; online 2018-04-12]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Associations of monoamine oxidase A gene first exon methylation with sexual abuse and current depression in women.

Checknita D, Ekström TJ, Comasco E, ..., Tiihonen J, Hodgins S

J Neural Transm (Vienna) 125 (7) 1053-1064 [2018-07-00; online 2018-03-29]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Assessing uncertainties in x-ray single-particle three-dimensional reconstruction.

Liu J, Engblom S, Nettelblad C

Phys Rev E 98 (1-1) 013303 [2018-07-00; online 2018-08-17]

Affiliated researcher

PubMed DOI Crossref

An in vitro model of lissencephaly: expanding the role of DCX during neurogenesis.

Shahsavani M, Pronk RJ, Falk R, ..., Gage FH, Falk A

Mol. Psychiatry 23 (7) 1674-1684 [2018-07-00; online 2017-09-19]

Affiliated researcher

PubMed DOI Crossref

ADARs and editing: The role of A-to-I RNA modification in cancer progression.

Fritzell K, Xu LD, Lagergren J, Öhman M

Semin. Cell Dev. Biol. 79 (-) 123-130 [2018-07-00; online 2017-11-16]

Affiliated researcher

PubMed DOI Crossref

A reassessment of DNA-immunoprecipitation-based genomic profiling.

Lentini A, Lagerwall C, Vikingsson S, ..., Benson M, Nestor CE

Nat. Methods 15 (7) 499-504 [2018-07-00; online 2018-06-25]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

A protein activity assay to measure global transcription factor activity reveals determinants of chromatin accessibility.

Wei B, Jolma A, Sahu B, ..., Taipale M, Taipale J

Nat. Biotechnol. 36 (6) 521-529 [2018-07-00; online 2018-05-21]

Affiliated researcher

DOI Crossref

Multidimensional transcriptomics provides detailed information about immune cell distribution and identity in HER2+ breast tumors

Salmén F, Vickovic S, Larsson L, ..., Ståhl PL, Lundeberg J

- - (-) - [2018-06-29; online 2018-06-29]

Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

Docking Screens for Dual Inhibitors of Disparate Drug Targets for Parkinson's Disease.

Jaiteh M, Zeifman A, Saarinen M, ..., Loza MI, Carlsson J

J Med Chem 61 (12) 5269-5278 [2018-06-28; online 2018-06-15]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Phenotypic Image Analysis Software Tools for Exploring and Understanding Big Image Data from Cell-Based Assays.

Smith K, Piccinini F, Balassa T, ..., Azizpour H, Horvath P

Cell Systems 6 (6) 636-653 [2018-06-27; online 2018-06-29]

Affiliated researcher

PubMed DOI Crossref

Model Communities Hint at Promiscuous Metabolic Linkages between Ubiquitous Free-Living Freshwater Bacteria.

Garcia SL, Buck M, Hamilton JJ, ..., McMahon KD, Eiler A

mSphere 3 (3) - [2018-06-27; online 2018-05-30]

Affiliated researcher Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

A reference cytochrome c oxidase subunit I database curated for hierarchical classification of arthropod metabarcoding data

Richardson RT, Bengtsson-Palme J, Gardiner MM, Johnson RM

PeerJ 6 (-) e5126 [2018-06-26; online 2018-06-26]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Understanding the Representative Gut Microbiota Dysbiosis in Metformin-Treated Type 2 Diabetes Patients Using Genome-Scale Metabolic Modeling.

Rosario D, Benfeitas R, Bidkhori G, ..., Shoaie S, Mardinoglu A

Front. Physiol. 9 (-) 775 [2018-06-25; online 2018-06-25]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Development of an optimal imaging strategy for selection of patients for affibody-based PNA-mediated radionuclide therapy.

Vorobyeva A, Westerlund K, Mitran B, ..., Tolmachev V, Karlström AE

Sci Rep 8 (1) 9643 [2018-06-25; online 2018-06-25]

Affiliated researcher

PubMed DOI Crossref

Dendritic Cells Actively Limit Interleukin-10 Production Under Inflammatory Conditions via DC-SCRIPT and Dual-Specificity Phosphatase 4.

Søndergaard JN, van Heeringen SJ, Looman MWG, ..., Ansems M, Adema GJ

Front Immunol 9 (-) 1420 [2018-06-22; online 2018-06-22]

Affiliated researcher

PubMed DOI Crossref

In Vitro Evolution of Antibodies Inspired by In Vivo Evolution.

Persson H, Kirik U, Thörnqvist L, ..., Levander F, Ohlin M

Front Immunol 9 (-) 1391 [2018-06-21; online 2018-06-21]

Affiliated researcher

PubMed DOI Crossref

Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity.

Berglund E, Maaskola J, Schultz N, ..., Helleday T, Lundeberg J

Nat Commun 9 (1) 2419 [2018-06-20; online 2018-06-20]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

Protein Evolution and Design.

von Heijne G

Annu. Rev. Biochem. 87 (-) 101-103 [2018-06-20; online 2018-06-22]

Affiliated researcher

PubMed DOI Crossref

Gene expression profiling of periodontitis-affected gingival tissue by spatial transcriptomics.

Lundmark A, Gerasimcik N, Båge T, ..., Lundeberg J, Yucel-Lindberg T

Sci Rep 8 (1) 9370 [2018-06-19; online 2018-06-19]

Affiliated researcher

PubMed DOI Crossref

Poly(alkylidenimine) Dendrimers Functionalized with the Organometallic Moiety [Ru(η⁵-C₅H₅)(PPh₃)₂]⁺ as Promising Drugs Against Cisplatin-Resistant Cancer Cells and Human Mesenchymal Stem Cells.

Gouveia M, Figueira J, Jardim MG, ..., Rissanen K, Rodrigues J

Molecules 23 (6) - [2018-06-17; online 2018-06-17]

Affiliated researcher

PubMed DOI Crossref

eIF4E-Binding Proteins 1 and 2 Limit Macrophage Anti-Inflammatory Responses through Translational Repression of IL-10 and Cyclooxygenase-2.

William M, Leroux LP, Chaparro V, ..., Larsson O, Jaramillo M

J. Immunol. 200 (12) 4102-4116 [2018-06-15; online 2018-04-30]

Affiliated researcher

PubMed DOI Crossref

Stabilized Cyclic Peptides as Scavengers of Autoantibodies: Neutralization of Anticitrullinated Protein/Peptide Antibodies in Rheumatoid Arthritis.

Gunasekera S, Fernandes-Cerqueira C, Wennmalm S, ..., Jakobsson PJ, Göransson U

ACS Chem. Biol. 13 (6) 1525-1535 [2018-06-15; online 2018-05-24]

Affiliated researcher

PubMed DOI Crossref

Extracellular nanovesicles released from the commensal yeast Malassezia sympodialis are enriched in allergens and interact with cells in human skin.

Johansson HJ, Vallhov H, Holm T, ..., Lehtiö J, Scheynius A

Sci Rep 8 (1) 9182 [2018-06-15; online 2018-06-15]

Affiliated researcher

PubMed DOI Crossref

User-Friendly Genetic Conditional Knockout Strategies by CRISPR/Cas9.

Chen L, Ye Y, Dai H, ..., Ren W, Zhang W

Stem Cells Int 2018 (-) 9576959 [2018-06-14; online 2018-06-14]

Affiliated researcher

PubMed DOI Crossref

Complementary studies of lipid membrane dynamics using iSCAT and super-resolved fluorescence correlation spectroscopy.

Reina F, Galiani S, Shrestha D, ..., Kukura P, Eggeling C

J. Phys. D: Appl. Phys. 51 (23) 235401 [2018-06-13; online 2018-05-16]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Antischistosomal Properties of Hederacolchiside A1 Isolated from Pulsatilla chinensis.

Kang N, Shen W, Gao H, ..., Xu Q, Yu D

Molecules 23 (6) - [2018-06-13; online 2018-06-13]

Affiliated researcher

PubMed DOI Crossref

Investigating Holocene human population history in North Asia using ancient mitogenomes.

Kılınç GM, Kashuba N, Yaka R, ..., Storå J, Götherström A

Sci Rep 8 (1) 8969 [2018-06-12; online 2018-06-12]

Affiliated researcher

PubMed DOI Crossref

Associations of Fitness, Physical Activity, Strength, and Genetic Risk With Cardiovascular Disease: Longitudinal Analyses in the UK Biobank Study.

Tikkanen E, Gustafsson S, Ingelsson E

Circulation 137 (24) 2583-2591 [2018-06-12; online 2018-04-09]

Affiliated researcher

PubMed DOI Crossref

A universal platform for selection and high-resolution phenotypic screening of bacterial mutants using the nanowell slide.

Antypas H, Veses-Garcia M, Weibull E, Andersson-Svahn H, Richter-Dahlfors A

Lab Chip 18 (12) 1767-1777 [2018-06-12; online 2018-05-22]

Affiliated researcher

PubMed DOI Crossref

Selective Loss of PARG Restores PARylation and Counteracts PARP Inhibitor-Mediated Synthetic Lethality.

Gogola E, Duarte AA, de Ruiter JR, ..., Jonkers J, Rottenberg S

Cancer Cell 33 (6) 1078-1093.e12 [2018-06-11; online 2018-06-13]

Affiliated researcher

PubMed DOI Crossref

Whole Exome Sequencing of Patients from Multicase Families with Systemic Lupus Erythematosus Identifies Multiple Rare Variants.

Delgado-Vega AM, Martínez-Bueno M, Oparina NY, ..., Kozyrev SV, Alarcón-Riquelme ME

Sci Rep 8 (1) 8775 [2018-06-08; online 2018-06-08]

Affiliated researcher

PubMed DOI Crossref

An expanded allosteric network in PTP1B by multitemperature crystallography, fragment screening, and covalent tethering.

Keedy DA, Hill ZB, Biel JT, ..., Wells JA, Fraser JS

Elife 7 (-) - [2018-06-07; online 2018-06-07]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Glucose challenge metabolomics implicates medium-chain acylcarnitines in insulin resistance.

Nowak C, Hetty S, Salihovic S, ..., Fall T, Ingelsson E

Sci Rep 8 (1) 8691 [2018-06-06; online 2018-06-06]

Affiliated researcher

PubMed DOI Crossref

Mitochondrial Translation Efficiency Controls Cytoplasmic Protein Homeostasis.

Suhm T, Kaimal JM, Dawitz H, ..., Andréasson C, Ott M

Cell Metab. 27 (6) 1309-1322.e6 [2018-06-05; online 2018-05-10]

Affiliated researcher

PubMed DOI Crossref

Intracellular Drug Bioavailability: Effect of Neutral Lipids and Phospholipids.

Treyer A, Mateus A, Wiśniewski JR, ..., Matsson P, Artursson P

Mol. Pharm. 15 (6) 2224-2233 [2018-06-04; online 2018-05-11]

Affiliated researcher

PubMed DOI Crossref

Active and inactive β1 integrins segregate into distinct nanoclusters in focal adhesions.

Spiess M, Hernandez-Varas P, Oddone A, ..., Lakadamyali M, Strömblad S

J. Cell Biol. 217 (6) 1929-1940 [2018-06-04; online 2018-04-09]

Affiliated researcher

PubMed DOI Crossref

A major locus controls local adaptation and adaptive life history variation in a perennial plant.

Wang J, Ding J, Tan B, ..., Street NR, Ingvarsson PK

Genome Biol. 19 (1) 72 [2018-06-04; online 2018-06-04]

Affiliated researcher

PubMed DOI Crossref

Testis transcriptome alterations in zebrafish (Danio rerio) with reduced fertility due to developmental exposure to 17α-ethinyl estradiol.

Porseryd T, Reyhanian Caspillo N, Volkova K, ..., Olsson PE, Porsch-Hällström I

Gen. Comp. Endocrinol. 262 (-) 44-58 [2018-06-01; online 2018-03-08]

Affiliated researcher

PubMed DOI Crossref

Structure-guided approach to site-specific fluorophore labeling of the lac repressor LacI.

Kipper K, Eremina N, Marklund E, ..., Elf J, Deindl S

PLoS ONE 13 (6) e0198416 [2018-06-01; online 2018-06-01]

Affiliated researcher Emil Marklund SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

ST Spot Detector: a web-based application for automatic spot and tissue detection for spatial Transcriptomics image datasets.

Wong K, Navarro JF, Bergenstråhle L, Ståhl PL, Lundeberg J

Bioinformatics 34 (11) 1966-1968 [2018-06-01; online 2018-01-24]

Affiliated researcher

PubMed DOI Crossref

Presence of Aedes and Anopheles mosquito larvae is correlated to bacteria found in domestic water-storage containers.

Nilsson LKJ, Sharma A, Bhatnagar RK, Bertilsson S, Terenius O

FEMS Microbiol. Ecol. 94 (6) - [2018-06-01; online 2018-04-05]

Affiliated researcher

PubMed DOI Crossref

Influence of Na+ and Mg2+ ions on RNA structures studied with molecular dynamics simulations.

Fischer NM, Polêto MD, Steuer J, van der Spoel D

Nucleic Acids Res. 46 (10) 4872-4882 [2018-06-01; online 2018-05-03]

Affiliated researcher

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Fixation and Spread of Somatic Mutations in Adult Human Colonic Epithelium.

Nicholson AM, Olpe C, Hoyle A, ..., Morrissey E, Winton DJ

Cell Stem Cell 22 (6) 909-918.e8 [2018-06-01; online 2018-05-17]

Affiliated researcher

PubMed DOI Crossref

Characterisation of molecular motions in cryo-EM single-particle data by multi-body refinement in RELION.

Nakane T, Kimanius D, Lindahl E, Scheres SH

Elife 7 (-) - [2018-06-01; online 2018-06-01]

Affiliated researcher

PubMed DOI Crossref

A vertical flow paper-microarray assay with isothermal DNA amplification for detection of Neisseria meningitidis.

Rivas L, Reuterswärd P, Rasti R, ..., Gantelius J, Andersson-Svahn H

Talanta 183 (-) 192-200 [2018-06-01; online 2018-02-16]

Affiliated researcher

PubMed DOI Crossref

γ-glutamyl transpeptidase deficiency caused by a large homozygous intragenic deletion in GGT1.

Darin N, Leckström K, Sikora P, ..., Almén G, Asin-Cayuela J

Eur. J. Hum. Genet. 26 (6) 808-817 [2018-06-00; online 2018-02-26]

Affiliated researcher

PubMed DOI Crossref

Topology of membrane proteins-predictions, limitations and variations.

Tsirigos KD, Govindarajan S, Bassot C, ..., Shu N, Elofsson A

Curr. Opin. Struct. Biol. 50 (-) 9-17 [2018-06-00; online 2017-11-05]

Affiliated researcher

PubMed DOI Crossref

T cells are influenced by a long non-coding RNA in the autoimmune associated PTPN2 locus.

Houtman M, Shchetynsky K, Chemin K, ..., Malmström V, Padyukov L

J. Autoimmun. 90 (-) 28-38 [2018-06-00; online 2018-02-03]

Affiliated researcher

PubMed DOI Crossref

Systems biology in hepatology: approaches and applications.

Mardinoglu A, Boren J, Smith U, Uhlen M, Nielsen J

Nat Rev Gastroenterol Hepatol 15 (6) 365-377 [2018-06-00; online 2018-04-25]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Specificity of glycosaminoglycan-protein interactions.

Kjellén L, Lindahl U

Curr. Opin. Struct. Biol. 50 (-) 101-108 [2018-06-00; online 2018-02-09]

Affiliated researcher

PubMed DOI Crossref

Paternally expressed imprinted genes associate with hybridization barriers in Capsella.

Lafon-Placette C, Hatorangan MR, Steige KA, ..., Slotte T, Köhler C

Nat Plants 4 (6) 352-357 [2018-06-00; online 2018-05-28]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Novel variants in Nordic patients referred for genetic testing of telomere-related disorders.

Norberg A, Rosén A, Raaschou-Jensen K, ..., Degerman S, Hultdin M

Eur. J. Hum. Genet. 26 (6) 858-867 [2018-06-00; online 2018-02-26]

Affiliated researcher

PubMed DOI Crossref

Molecular mechanisms driving transcriptional stress responses.

Vihervaara A, Duarte FM, Lis JT

Nat. Rev. Genet. 19 (6) 385-397 [2018-06-00; online 2018-03-21]

Anniina Vihervaara SciLifeLab Fellow

PubMed DOI Crossref

Metabolite Depletion Affects Flux Profiling of Cell Lines.

Nilsson A, Haanstra JR, Teusink B, Nielsen J

Trends Biochem. Sci. 43 (6) 395-397 [2018-06-00; online 2018-04-12]

Avlant Nilsson DDLS Fellow

DOI Crossref

Increasing dominance of terrigenous organic matter in circumpolar freshwaters due to permafrost thaw

Wauthy M, Rautio M, Christoffersen KS, ..., Peura S, Vincent WF

Limnol. Oceanogr. 3 (3) 186-198 [2018-06-00; online 2018-02-01]

Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

Improved protein model quality assessments by changing the target function.

Uziela K, Menéndez Hurtado D, Shu N, Wallner B, Elofsson A

Proteins 86 (6) 654-663 [2018-06-00; online 2018-04-15]

Affiliated researcher

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Genomewide binding of transcription factor Snail1 in triple-negative breast cancer cells.

Maturi V, Morén A, Enroth S, Heldin CH, Moustakas A

Mol Oncol 12 (7) 1153-1174 [2018-06-00; online 2018-05-21]

Affiliated researcher

PubMed DOI Crossref

Exploring the Viral Channel KcvPBCV-1 Function via Computation.

Andersson AEV, Kasimova MA, Delemotte L

J. Membr. Biol. 251 (3) 419-430 [2018-06-00; online 2018-02-23]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Elevated inflammation in association with alcohol abuse among Blacks but not Whites: results from the MIDUS biomarker study.

Ransome Y, Slopen N, Karlsson O, Williams DR

J Behav Med 41 (3) 374-384 [2018-06-00; online 2017-12-11]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Diminished CXCR5 expression in peripheral blood of patients with Sjögren's syndrome may relate to both genotype and salivary gland homing.

Aqrawi LA, Ivanchenko M, Björk A, ..., Skarstein K, Wahren-Herlenius M

Clin. Exp. Immunol. 192 (3) 259-270 [2018-06-00; online 2018-03-24]

Affiliated researcher

PubMed DOI Crossref

Circulating levels of perfluoroalkyl substances and left ventricular geometry of the heart in the elderly.

Mobacke I, Lind L, Dunder L, Salihovic S, Lind PM

Environ Int 115 (-) 295-300 [2018-06-00; online 2018-04-03]

Affiliated researcher

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Bioengineering with Endothelial Progenitor Cells Improves the Vascular Engraftment of Transplanted Human Islets.

Grapensparr L, Christoffersson G, Carlsson PO

Cell Transplant 27 (6) 948-956 [2018-06-00; online 2018-06-03]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

A novel ECEL1 mutation expands the phenotype of distal arthrogryposis multiplex congenita type 5D to include pretibial vertical skin creases.

Stattin EL, Johansson J, Gudmundsson S, ..., Bondeson ML, Wilbe M

Am. J. Med. Genet. A 176 (6) 1405-1410 [2018-06-00; online 2018-04-16]

Affiliated researcher

DOI Crossref

Gammaproteobacterial methanotrophs dominate methanotrophy in aerobic and anaerobic layers of boreal lake waters

Rissanen A, Saarenheimo J, Tiirola M, ..., Karvinen A, Nykänen H

Aquat. Microb. Ecol. 81 (3) 257-276 [2018-05-30; online 2018-05-30]

Affiliated researcher Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

Common genetic variation in the autoimmune regulator (AIRE) locus is associated with autoimmune Addison's disease in Sweden.

Eriksson D, Bianchi M, Landegren N, ..., Rosengren Pielberg G, Kämpe O

Sci Rep 8 (1) 8395 [2018-05-30; online 2018-05-30]

Affiliated researcher

PubMed DOI Crossref

Force Field Benchmark of Amino Acids: I. Hydration and Diffusion in Different Water Models.

Zhang H, Yin C, Jiang Y, van der Spoel D

J Chem Inf Model 58 (5) 1037-1052 [2018-05-29; online 2018-04-18]

Affiliated researcher

PubMed DOI Crossref

Emulsions Stabilized by Chitosan-Modified Silica Nanoparticles: pH Control of Structure-Property Relations.

Alison L, Demirörs AF, Tervoort E, ..., Vermant J, Studart AR

Langmuir 34 (21) 6147-6160 [2018-05-29; online 2018-05-17]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

Network Visualization and Analysis of Spatially Aware Gene Expression Data with InsituNet.

Salamon J, Qian X, Nilsson M, Lynn DJ

Cell Systems 6 (5) 626-630.e3 [2018-05-23; online 2018-05-09]

Affiliated researcher

PubMed DOI Crossref

Thermophoresis-Controlled Size-Dependent DNA Translocation through an Array of Nanopores.

Zhang M, Ngampeerapong C, Redin D, ..., Sychugov I, Linnros J

ACS Nano 12 (5) 4574-4582 [2018-05-22; online 2018-04-19]

Affiliated researcher

PubMed DOI Crossref

Systematic approach for dissecting the molecular mechanisms of transcriptional regulation in bacteria.

Belliveau NM, Barnes SL, Ireland WT, ..., Kinney JB, Phillips R

Proc. Natl. Acad. Sci. U.S.A. 115 (21) E4796-E4805 [2018-05-22; online 2018-05-04]

Affiliated researcher

PubMed DOI Crossref

Publisher Correction: A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage.

Ladds MJGW, van Leeuwen IMM, Drummond CJ, ..., McCormack E, Laín S

Nat Commun 9 (1) 2071 [2018-05-22; online 2018-05-22]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Repurposing High-Throughput Image Assays Enables Biological Activity Prediction for Drug Discovery.

Simm J, Klambauer G, Arany A, ..., Moreau Y, Ceulemans H

Cell Chem Biol 25 (5) 611-618.e3 [2018-05-17; online 2018-03-01]

Affiliated researcher

PubMed DOI Crossref

Aggregated Aβ1-42 Is Selectively Toxic for Neurons, Whereas Glial Cells Produce Mature Fibrils with Low Toxicity in Drosophila.

Jonson M, Nyström S, Sandberg A, ..., Thor S, Hammarström P

Cell Chem Biol 25 (5) 595-610.e5 [2018-05-17; online 2018-04-12]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Quantitation of Endogenous Metabolites in Mouse Tumors Using Mass-Spectrometry Imaging.

Swales JG, Dexter A, Hamm G, ..., Critchlow SE, Goodwin RJA

Anal. Chem. 90 (10) 6051-6058 [2018-05-15; online 2018-04-26]

Affiliated researcher

PubMed DOI Crossref

Nontarget Mass Spectrometry Reveals New Perfluoroalkyl Substances in Fish from the Yangtze River and Tangxun Lake, China.

Liu Y, Qian M, Ma X, Zhu L, Martin JW

Environ. Sci. Technol. 52 (10) 5830-5840 [2018-05-15; online 2018-04-27]

Affiliated researcher

PubMed DOI Crossref

Human skin barrier formation takes place via a cubic to lamellar lipid phase transition as analyzed by cryo-electron microscopy and EM-simulation.

Narangifard A, den Hollander L, Wennberg CL, ..., Daneholt B, Norlén L

Exp. Cell Res. 366 (2) 139-151 [2018-05-15; online 2018-03-19]

Affiliated researcher

PubMed DOI Crossref

Drug Repositioning for Effective Prostate Cancer Treatment.

Turanli B, Grøtli M, Boren J, ..., Arga KY, Mardinoglu A

Front. Physiol. 9 (-) 500 [2018-05-15; online 2018-05-15]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

A genome-wide association study of IgM antibody against phosphorylcholine: shared genetics and phenotypic relationship to chronic lymphocytic leukemia.

Chen X, Gustafsson S, Whitington T, ..., Frostegård J, Magnusson PKE

Hum. Mol. Genet. 27 (10) 1809-1818 [2018-05-15; online 2018-03-17]

Affiliated researcher

PubMed DOI Crossref

Habitual coffee consumption and cognitive function: a Mendelian randomization meta-analysis in up to 415,530 participants.

Zhou A, Taylor AE, Karhunen V, ..., Llewellyn DJ, Hyppönen E

Sci Rep 8 (1) 7526 [2018-05-14; online 2018-05-14]

Affiliated researcher

PubMed DOI Crossref

Competitive ability of Capsella species with different mating systems and ploidy levels.

Petrone Mendoza S, Lascoux M, Glémin S

Ann. Bot. 121 (6) 1257-1264 [2018-05-11; online 2018-02-23]

Affiliated researcher

PubMed DOI Crossref

Impact of Dynamically Exposed Polarity on Permeability and Solubility of Chameleonic Drugs Beyond the Rule of 5.

Rossi Sebastiano M, Doak BC, Backlund M, ..., Matsson P, Kihlberg J

J. Med. Chem. 61 (9) 4189-4202 [2018-05-10; online 2018-04-16]

Affiliated researcher

PubMed DOI Crossref

Engineering a palette of eukaryotic chromoproteins for bacterial synthetic biology.

Liljeruhm J, Funk SK, Tietscher S, ..., Wistrand-Yuen E, Forster AC

J Biol Eng 12 (-) 8 [2018-05-10; online 2018-05-10]

Affiliated researcher

PubMed DOI Crossref

Time-resolved transcriptome and proteome landscape of human regulatory T cell (Treg) differentiation reveals novel regulators of FOXP3.

Schmidt A, Marabita F, Kiani NA, ..., Lahesmaa R, Tegnér J

BMC Biol. 16 (1) 47 [2018-05-07; online 2018-05-07]

Affiliated researcher

PubMed DOI Crossref

PDGFRβ translocates to the nucleus and regulates chromatin remodeling via TATA element-modifying factor 1.

Papadopoulos N, Lennartsson J, Heldin CH

J. Cell Biol. 217 (5) 1701-1717 [2018-05-07; online 2018-03-15]

Affiliated researcher

PubMed DOI Crossref

Response to "Comparison and Evaluation of Clustering Algorithms for Tandem Mass Spectra".

Griss J, Perez-Riverol Y, The M, Käll L, Vizcaíno JA

J. Proteome Res. 17 (5) 1993-1996 [2018-05-04; online 2018-04-25]

Affiliated researcher

PubMed DOI Crossref

A Protein Standard That Emulates Homology for the Characterization of Protein Inference Algorithms.

The M, Edfors F, Perez-Riverol Y, ..., Forsström B, Käll L

J. Proteome Res. 17 (5) 1879-1886 [2018-05-04; online 2018-04-16]

Affiliated researcher

PubMed DOI Crossref

Unique Phenotypic Characteristics of Recently Transmitted HIV-1 Subtype C Envelope Glycoprotein gp120: Use of CXCR6 Coreceptor by Transmitted Founder Viruses.

Ashokkumar M, Aralaguppe SG, Tripathy SP, Hanna LE, Neogi U

J. Virol. 92 (9) - [2018-05-01; online 2018-04-13]

Affiliated researcher

PubMed DOI Crossref

Tracking the NGS revolution: managing life science research on shared high-performance computing clusters.

Dahlö M, Scofield DG, Schaal W, Spjuth O

Gigascience 7 (5) - [2018-05-01; online 2018-04-17]

Affiliated researcher

PubMed DOI Crossref

Substrate-bound outward-open structure of a Na+-coupled sialic acid symporter reveals a new Na+ site.

Wahlgren WY, Dunevall E, North RA, ..., Ramaswamy S, Friemann R

Nat Commun 9 (1) 1753 [2018-05-01; online 2018-05-01]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Potentials and pitfalls of inverse fluorescence correlation spectroscopy.

Wennmalm S

Methods 140-141 (-) 23-31 [2018-05-01; online 2018-02-02]

Affiliated researcher

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Placental lncRNA Expression Is Associated With Prenatal Phthalate Exposure.

Machtinger R, Zhong J, Mansur A, ..., Karlsson O, Baccarelli AA

Toxicol Sci 163 (1) 116-122 [2018-05-01; online 2018-02-01]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Overexpression of heparanase in mice promoted megakaryopoiesis.

Tan YX, Cui H, Wan LM, ..., Vlodavsky I, Li JP

Glycobiology 28 (5) 269-275 [2018-05-01; online 2018-02-23]

Affiliated researcher

PubMed DOI Crossref

MICA-129 Dimorphism and Soluble MICA Are Associated With the Progression of Multiple Myeloma.

Zingoni A, Vulpis E, Cecere F, ..., Cerboni C, Santoni A

Front Immunol 9 (-) 926 [2018-05-01; online 2018-05-01]

Affiliated researcher

PubMed DOI Crossref

Integrin α

Lidén Å, Karlsen TV, Guss B, Reed RK, Rubin K

Exp. Physiol. 103 (5) 629-634 [2018-05-01; online 2018-03-11]

Affiliated researcher

PubMed DOI Crossref

Estimating Age-Dependent Extinction: Contrasting Evidence from Fossils and Phylogenies.

Hagen O, Andermann T, Quental TB, Antonelli A, Silvestro D

Syst. Biol. 67 (3) 458-474 [2018-05-01; online 2017-10-27]

DDLS Fellow Tobias Andermann

PubMed DOI Crossref

Epoxide hydrolysis as a model system for understanding flux through a branched reaction scheme.

Janfalk Carlsson Å, Bauer P, Dobritzsch D, Kamerlin SCL, Widersten M

IUCrJ 5 (Pt 3) 269-282 [2018-05-01; online 2018-03-22]

Affiliated researcher

PubMed DOI Crossref

Array profiling reveals contribution of Cthrc1 to growth of the denervated rat urinary bladder.

Zhu B, Ekman M, Svensson D, ..., Uvelius B, Swärd K

Am. J. Physiol. Renal Physiol. 314 (5) F893-F905 [2018-05-01; online 2018-01-10]

Affiliated researcher

PubMed DOI Crossref

Transcription profiling of peripheral B cells in antibody-positive primary Sjögren's syndrome reveals upregulated expression of CX3CR1 and a type I and type II interferon signature.

Imgenberg-Kreuz J, Sandling JK, Björk A, ..., Syvänen AC, Nordmark G

Scand. J. Immunol. 87 (5) e12662 [2018-05-00; online 2018-04-15]

Affiliated researcher

PubMed DOI Crossref

Sulfasalazine-Induced Agranulocytosis Is Associated With the Human Leukocyte Antigen Locus.

Wadelius M, Eriksson N, Kreutz R, ..., Hallberg P, EuDAC

Clin. Pharmacol. Ther. 103 (5) 843-853 [2018-05-00; online 2017-09-28]

Affiliated researcher

PubMed DOI Crossref

Snail regulates BMP and TGFβ pathways to control the differentiation status of glioma-initiating cells.

Caja L, Tzavlaki K, Dadras MS, ..., Heldin CH, Moustakas A

Oncogene 37 (19) 2515-2531 [2018-05-00; online 2018-02-16]

Affiliated researcher

PubMed DOI Crossref

Snail mediates crosstalk between TGFβ and LXRα in hepatocellular carcinoma.

Bellomo C, Caja L, Fabregat I, ..., Heldin CH, Moustakas A

Cell Death Differ. 25 (5) 885-903 [2018-05-00; online 2017-12-11]

Affiliated researcher

PubMed DOI Crossref

Prostaglandin E

Maric J, Ravindran A, Mazzurana L, ..., Konya V, Mjösberg J

J. Allergy Clin. Immunol. 141 (5) 1761-1773.e6 [2018-05-00; online 2017-12-05]

Affiliated researcher

PubMed DOI Crossref

Perfluorooctanoic acid (PFOA) exposure promotes proliferation, migration and invasion potential in human breast epithelial cells.

Pierozan P, Jerneren F, Karlsson O

Arch. Toxicol. 92 (5) 1729-1739 [2018-05-00; online 2018-03-03]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Hyperglycemia Alters Expression of Cerebral Metabolic Genes after Cardiac Arrest.

Lindblom RPF, Molnar M, Israelsson C, ..., Wiklund L, Lennmyr F

J Stroke Cerebrovasc Dis 27 (5) 1200-1211 [2018-05-00; online 2018-01-03]

Affiliated researcher

PubMed DOI Crossref

Agathangelidis A, Ljungström V, Scarfò L, ..., Rosenquist R, Ghia P

Haematologica 103 (5) 865-873 [2018-05-00; online 2018-02-15]

Affiliated researcher

PubMed DOI Crossref

ERIC recommendations for TP53 mutation analysis in chronic lymphocytic leukemia-update on methodological approaches and results interpretation.

Malcikova J, Tausch E, Rossi D, ..., Pospisilova S, European Research Initiative on Chronic Lymphocytic Leukemia (ERIC) — TP53 network

Leukemia 32 (5) 1070-1080 [2018-05-00; online 2018-02-02]

Affiliated researcher

PubMed DOI Crossref

Differential susceptibility effects of oxytocin gene (OXT) polymorphisms and perceived parenting on social anxiety among adolescents.

Olofsdotter S, Åslund C, Furmark T, Comasco E, Nilsson KW

Dev Psychopathol 30 (2) 449-459 [2018-05-00; online 2017-06-13]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Detecting ligand interactions in real time on living bacterial cells.

Encarnação JC, Schulte T, Achour A, Björkelund H, Andersson K

Appl. Microbiol. Biotechnol. 102 (9) 4193-4201 [2018-05-00; online 2018-03-17]

Affiliated researcher

PubMed DOI Crossref

Demystifying Eukaryote Lateral Gene Transfer (Response to Martin 2017 DOI: 10.1002/bies.201700115).

Leger MM, Eme L, Stairs CW, Roger AJ

Bioessays 40 (5) e1700242 [2018-05-00; online 2018-03-15]

Affiliated researcher

PubMed DOI Crossref

Deep mitochondrial origin outside the sampled alphaproteobacteria.

Martijn J, Vosseberg J, Guy L, Offre P, Ettema TJG

Nature 557 (7703) 101-105 [2018-05-00; online 2018-04-25]

Affiliated researcher

PubMed DOI Crossref

DNA methylation mapping identifies gene regulatory effects in patients with systemic lupus erythematosus.

Imgenberg-Kreuz J, Carlsson Almlöf J, Leonard D, ..., Syvänen AC, Sandling JK

Ann. Rheum. Dis. 77 (5) 736-743 [2018-05-00; online 2018-02-01]

Affiliated researcher

PubMed DOI Crossref

Combined BET bromodomain and CDK2 inhibition in MYC-driven medulloblastoma.

Bolin S, Borgenvik A, Persson CU, ..., Weishaupt H, Swartling FJ

Oncogene 37 (21) 2850-2862 [2018-05-00; online 2018-03-07]

Affiliated researcher

DOI Crossref

Introducing ribosomal tandem repeat barcoding for fungi

Wurzbacher C, Larsson E, Bengtsson-Palme J, ..., Kagami M, Henrik Nilsson R

bioRxiv preprint - (-) - [2018-04-28; online 2018-04-28]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

RNA-sequencing reveals long-term effects of silver nanoparticles on human lung cells.

Gliga AR, Di Bucchianico S, Lindvall J, Fadeel B, Karlsson HL

Sci Rep 8 (1) 6668 [2018-04-27; online 2018-04-27]

Affiliated researcher

PubMed DOI Crossref

TGF-β and the Tissue Microenvironment: Relevance in Fibrosis and Cancer.

Caja L, Dituri F, Mancarella S, ..., Giannelli G, Fabregat I

Int J Mol Sci 19 (5) - [2018-04-26; online 2018-04-26]

Affiliated researcher

PubMed DOI Crossref

Rebooting Human Immunology.

Davis MM, Brodin P

Annu. Rev. Immunol. 36 (-) 843-864 [2018-04-26; online 2018-02-28]

Affiliated researcher

PubMed DOI Crossref

Comparative omics and feeding manipulations in chicken indicate a shift of the endocrine role of visceral fat towards reproduction.

Bornelöv S, Seroussi E, Yosefi S, ..., Andersson L, Friedman-Einat M

BMC Genomics 19 (1) 295 [2018-04-26; online 2018-04-26]

Affiliated researcher

PubMed DOI Crossref

The multiple myeloma risk allele at 5q15 lowers ELL2 expression and increases ribosomal gene expression.

Ali M, Ajore R, Wihlborg AK, ..., Weinhold N, Nilsson B

Nat Commun 9 (1) 1649 [2018-04-25; online 2018-04-25]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Quantification of endogenous and exogenous protein expressions of Na,K-ATPase with super-resolution PALM/STORM imaging.

Bernhem K, Blom H, Brismar H

PLoS ONE 13 (4) e0195825 [2018-04-25; online 2018-04-25]

Affiliated researcher

PubMed DOI Crossref

Experimental validation of predicted cancer genes using FRET.

Guala D, Bernhem K, Blal HA, ..., Brismar H, Sonnhammer ELL

Methods Appl Fluoresc 6 (3) 035007 [2018-04-25; online 2018-04-25]

Affiliated researcher

PubMed DOI Crossref

Structural Basis for a Bimodal Allosteric Mechanism of General Anesthetic Modulation in Pentameric Ligand-Gated Ion Channels.

Fourati Z, Howard RJ, Heusser SA, ..., Lindahl E, Delarue M

Cell Reports 23 (4) 993-1004 [2018-04-24; online 2018-04-26]

Affiliated researcher

PubMed DOI Crossref

Repeated evolution of self-compatibility for reproductive assurance.

Nieuwenhuis BPS, Tusso S, Bjerling P, ..., Wolf JBW, Immler S

Nat Commun 9 (1) 1639 [2018-04-24; online 2018-04-24]

Affiliated researcher

PubMed DOI Crossref

Large-Scale Brain Simulation and Disorders of Consciousness. Mapping Technical and Conceptual Issues.

Farisco M, Kotaleski JH, Evers K

Front Psychol 9 (-) 585 [2018-04-24; online 2018-04-24]

Affiliated researcher

PubMed DOI Crossref

Biological Insights Into Muscular Strength: Genetic Findings in the UK Biobank.

Tikkanen E, Gustafsson S, Amar D, ..., Ashley EA, Ingelsson E

Sci Rep 8 (1) 6451 [2018-04-24; online 2018-04-24]

Affiliated researcher

PubMed DOI Crossref

RNA Sequencing of Stentor Cell Fragments Reveals Transcriptional Changes during Cellular Regeneration.

Onsbring H, Jamy M, Ettema TJG

Curr. Biol. 28 (8) 1281-1288.e3 [2018-04-23; online 2018-04-05]

Affiliated researcher

PubMed DOI Crossref

Estimating genetic kin relationships in prehistoric populations.

Monroy Kuhn JM, Jakobsson M, Günther T

PLoS ONE 13 (4) e0195491 [2018-04-23; online 2018-04-23]

Affiliated researcher

PubMed DOI Crossref

Autophagic flux blockage by accumulation of weakly basic tenovins leads to elimination of B-Raf mutant tumour cells that survive vemurafenib.

Ladds MJGW, Pastor-Fernández A, Popova G, ..., Bhatia R, Laín S

PLoS ONE 13 (4) e0195956 [2018-04-23; online 2018-04-23]

Affiliated researcher

PubMed DOI Crossref

Limited reverse transcriptase activity of phi29 DNA polymerase.

Krzywkowski T, Kühnemund M, Wu D, Nilsson M

Nucleic Acids Res. 46 (7) 3625-3632 [2018-04-20; online 2018-03-20]

Affiliated researcher

PubMed DOI Crossref

In Situ Target Engagement Studies in Adherent Cells.

Axelsson H, Almqvist H, Otrocka M, ..., Lundbäck T, Seashore-Ludlow B

ACS Chem. Biol. 13 (4) 942-950 [2018-04-20; online 2018-02-21]

Affiliated researcher

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A method for analysis of marker persistent organic pollutants in low-volume plasma and serum samples using 96-well plate solid phase extraction.

Stubleski J, Kukucka P, Salihovic S, ..., Lind L, Kärrman A

J Chromatogr A 1546 (-) 18-27 [2018-04-20; online 2018-02-27]

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Expression of scavenger receptor MARCO defines a targetable tumor-associated macrophage subset in non-small cell lung cancer.

La Fleur L, Boura VF, Alexeyenko A, ..., Karlsson MCI, Botling J

Int. J. Cancer - (-) - [2018-04-18; online 2018-04-18]

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Data quality of whole genome bisulfite sequencing on Illumina platforms.

Raine A, Liljedahl U, Nordlund J

PLoS ONE 13 (4) e0195972 [2018-04-18; online 2018-04-18]

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The Immunogenicity of a Proline-Substituted Altered Peptide Ligand toward the Cancer-Associated TEIPP Neoepitope Trh4 Is Unrelated to Complex Stability.

Hafstrand I, Doorduijn EM, Sun R, ..., van Hall T, Achour A

J. Immunol. 200 (8) 2860-2868 [2018-04-15; online 2018-03-05]

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Microfluidic magnetic fluidized bed for DNA analysis in continuous flow mode.

Hernández-Neuta I, Pereiro I, Ahlford A, ..., Descroix S, Nilsson M

Biosens Bioelectron 102 (-) 531-539 [2018-04-15; online 2017-11-26]

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Transcriptome profiling of the interconnection of pathways involved in malignant transformation and response to hypoxia.

Danielsson F, Fasterius E, Sullivan D, ..., Williams C, Lundberg E

Oncotarget 9 (28) 19730-19744 [2018-04-13; online 2018-04-13]

Adil Mardinoglu SciLifeLab Fellow

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The challenges of designing a benchmark strategy for bioinformatics pipelines in the identification of antimicrobial resistance determinants using next generation sequencing technologies.

Angers-Loustau A, Petrillo M, Bengtsson-Palme J, ..., Venturi V, Van den Eede G

F1000Res 7 (-) 459 [2018-04-13; online 2018-04-13]

DDLS Fellow Johan Bengtsson-Palme

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Vast diversity of prokaryotic virus genomes encoding double jelly-roll major capsid proteins uncovered by genomic and metagenomic sequence analysis.

Yutin N, Bäckström D, Ettema TJG, Krupovic M, Koonin EV

Virol. J. 15 (1) 67 [2018-04-10; online 2018-04-10]

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Inter-laboratory testing of the effect of DNA blocking reagent G2 on DNA extraction from low-biomass clay samples.

Jacobsen CS, Nielsen TK, Vester JK, ..., Ekelund F, Bælum J

Sci Rep 8 (1) 5711 [2018-04-09; online 2018-04-09]

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A Comprehensive Pan-Cancer Molecular Study of Gynecologic and Breast Cancers.

Berger AC, Korkut A, Kanchi RS, ..., Levine DA, Akbani R

Cancer Cell 33 (4) 690-705.e9 [2018-04-09; online 2018-04-02]

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Expression levels of long non-coding RNAs are prognostic for AML outcome.

Mer AS, Lindberg J, Nilsson C, ..., Lehmann S, Rantalainen M

J Hematol Oncol 11 (1) 52 [2018-04-07; online 2018-04-07]

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Conformational Intermediate That Controls KPC-2 Catalysis and Beta-Lactam Drug Resistance

Cortina GA, Hays JM, Kasson PM

ACS Catal 8 (4) 2741-2747 [2018-04-06; online 2018-02-21]

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Modular assembly of the nucleolar pre-60S ribosomal subunit.

Sanghai ZA, Miller L, Molloy KR, ..., Chait BT, Klinge S

Nature 556 (7699) 126-129 [2018-04-05; online 2018-03-05]

Jonas Barandun SciLifeLab Fellow

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Copy number of pancreatic polypeptide receptor gene NPY4R correlates with body mass index and waist circumference.

Shebanits K, Andersson-Assarsson JC, Larsson I, ..., Feuk L, Larhammar D

PLoS ONE 13 (4) e0194668 [2018-04-05; online 2018-04-05]

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Systemic and specific effects of antihypertensive and lipid-lowering medication on plasma protein biomarkers for cardiovascular diseases.

Enroth S, Maturi V, Berggrund M, ..., Johansson Å, Gyllensten U

Sci Rep 8 (1) 5531 [2018-04-03; online 2018-04-03]

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LILRB1 polymorphisms influence posttransplant HCMV susceptibility and ligand interactions.

Yu K, Davidson CL, Wójtowicz A, ..., Swiss Transplant Cohort Study , Burshtyn DN

J. Clin. Invest. 128 (4) 1523-1537 [2018-04-02; online 2018-03-12]

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Distinct mechanistic responses to replication fork stalling induced by either nucleotide or protein deprivation.

Henriksson S, Groth P, Gustafsson N, Helleday T

Cell Cycle 17 (5) 568-579 [2018-04-02; online 2018-04-02]

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An Application-Directed, Versatile DNA FISH Platform for Research and Diagnostics.

Gelali E, Custodio J, Girelli G, ..., Crosetto N, Bienko M

Methods in molecular biology (Clifton, N.J.) 1766 (-) 303-333 [2018-04-02; online 2018-04-02]

Magda Bienko SciLifeLab Fellow

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ERF deletion rescues RAS deficiency in mouse embryonic stem cells.

Mayor-Ruiz C, Olbrich T, Drosten M, ..., Ruiz S, Fernandez-Capetillo O

Genes Dev. 32 (7-8) 568-576 [2018-04-01; online 2018-04-12]

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Acquisition of a Novel Sulfur-Oxidizing Symbiont in the Gutless Marine Worm Inanidrilus exumae.

Bergin C, Wentrup C, Brewig N, ..., De Wit P, Dubilier N

Appl. Environ. Microbiol. 84 (7) - [2018-04-01; online 2018-03-19]

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Whole-Lake Sugar Addition Demonstrates Trophic Transfer of Dissolved Organic Carbon to Top Consumers

Jones RI, Kankaala P, Nykänen H, ..., Rask M, Vesala S

Ecosystems 21 (3) 495-506 [2018-04-00; online 2017-06-21]

Affiliated researcher Sari Peura SciLifeLab Fellow

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Ultraviolet Photoluminescence of Carbon Nanospheres and its Surface Plasmon-Induced Enhancement.

Gan Z, Pan P, Chen Z, ..., Chang C, Tao Y

Small 14 (16) e1704239 [2018-04-00; online 2018-03-25]

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Targeted copy number screening highlights an intragenic deletion of WDR63 as the likely cause of human occipital encephalocele and abnormal CNS development in zebrafish.

Hofmeister W, Pettersson M, Kurtoglu D, ..., Gustavsson P, Lindstrand A

Hum. Mutat. 39 (4) 495-505 [2018-04-00; online 2018-01-11]

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Structure of the chloroplast ribosome with chl-RRF and hibernation-promoting factor.

Perez Boerema A, Aibara S, Paul B, ..., Lindahl E, Amunts A

Nat Plants 4 (4) 212-217 [2018-04-00; online 2018-04-02]

Affiliated researcher Alexey Amunts SciLifeLab Fellow

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Structural basis of ligand binding modes at the neuropeptide Y Y

Yang Z, Han S, Keller M, ..., Buschauer A, Wu B

Nature 556 (7702) 520-524 [2018-04-00; online 2018-04-18]

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Structural and functional studies of Spr1654: an essential aminotransferase in teichoic acid biosynthesis in

Han X, Sun R, Sandalova T, Achour A

Open Biol 8 (4) - [2018-04-00; online 2018-04-20]

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Refining the accuracy of validated target identification through coding variant fine-mapping in type 2 diabetes.

Mahajan A, Wessel J, Willems SM, ..., Rotter JI, McCarthy MI

Nat. Genet. 50 (4) 559-571 [2018-04-00; online 2018-04-09]

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Platelets, NETs and cancer.

Cedervall J, Hamidi A, Olsson AK

Thromb. Res. 164 Suppl 1 (-) S148-S152 [2018-04-00; online 2018-04-29]

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Permeating disciplines: Overcoming barriers between molecular simulations and classical structure-function approaches in biological ion transport.

Howard RJ, Carnevale V, Delemotte L, Hellmich UA, Rothberg BS

Biochimica et Biophysica Acta (BBA) - Biomembranes 1860 (4) 927-942 [2018-04-00; online 2017-12-16]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

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Nutritional preferences of human gut bacteria reveal their metabolic idiosyncrasies.

Tramontano M, Andrejev S, Pruteanu M, ..., Typas A, Patil KR

Nat. Microbiol 3 (4) 514-522 [2018-04-00; online 2018-03-19]

Aleksej Zelezniak SciLifeLab Fellow

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Neanderthal and Denisovan ancestry in Papuans: A functional study.

Akkuratov EE, Gelfand MS, Khrameeva EE

J Bioinform Comput Biol 16 (2) 1840011 [2018-04-00; online 2018-05-10]

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Multiancestry genome-wide association study of 520,000 subjects identifies 32 loci associated with stroke and stroke subtypes.

Malik R, Chauhan G, Traylor M, ..., MEGASTROKE Consortium , MEGASTROKE Consortium:

Nat. Genet. 50 (4) 524-537 [2018-04-00; online 2018-03-12]

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Maintenance use of aspirin or other non-steroidal anti-inflammatory drugs (NSAIDs) and prostate cancer risk.

Ma Y, Brusselaers N

Prostate Cancer Prostatic Dis. 21 (1) 147-152 [2018-04-00; online 2017-12-19]

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Maintenance proton pump inhibition therapy and risk of oesophageal cancer.

Brusselaers N, Engstrand L, Lagergren J

Cancer Epidemiol 53 (-) 172-177 [2018-04-00; online 2018-02-22]

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Learning Surrogate Models of Document Image Quality Metrics for Automated Document Image Processing

Singh P, Vats E, Hast A

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Prashant Singh SciLifeLab Fellow

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Intrinsic Functional Potential of NK-Cell Subsets Constrains Retargeting Driven by Chimeric Antigen Receptors.

Oei VYS, Siernicka M, Graczyk-Jarzynka A, ..., Kyte JA, Malmberg KJ

Cancer Immunol Res 6 (4) 467-480 [2018-04-00; online 2018-02-19]

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Interleukin-22 reverses human islet dysfunction and apoptosis triggered by hyperglycemia and LIGHT.

Abadpour S, Halvorsen B, Sahraoui A, ..., Aukrust P, Scholz H

J. Mol. Endocrinol. 60 (3) 171-183 [2018-04-00; online 2018-01-12]

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High plasma organochlorine pesticide levels are related to increased biological age as calculated by DNA methylation analysis.

Lind PM, Salihovic S, Lind L

Environ Int 113 (-) 109-113 [2018-04-00; online 2018-02-06]

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Gating interaction maps reveal a noncanonical electromechanical coupling mode in the Shaker K+ channel.

Fernández-Mariño AI, Harpole TJ, Oelstrom K, Delemotte L, Chanda B

Nat. Struct. Mol. Biol. 25 (4) 320-326 [2018-04-00; online 2018-03-26]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

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GABA Regulates Release of Inflammatory Cytokines From Peripheral Blood Mononuclear Cells and CD4

Bhandage AK, Jin Z, Korol SV, ..., Kamali-Moghaddam M, Birnir B

EBioMedicine 30 (-) 283-294 [2018-04-00; online 2018-03-28]

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Effect of Ca2+ on the promiscuous target-protein binding of calmodulin.

Westerlund AM, Delemotte L

PLoS Comput Biol 14 (4) e1006072 [2018-04-00; online 2018-04-03]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

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EOMES-positive CD4

Chemin K, Ramsköld D, Diaz-Gallo LM, ..., Catrina A, Malmström V

Eur. J. Immunol. 48 (4) 655-669 [2018-04-00; online 2018-02-28]

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Digital image analysis in breast pathology-from image processing techniques to artificial intelligence.

Robertson S, Azizpour H, Smith K, Hartman J

Transl Res 194 (-) 19-35 [2018-04-00; online 2017-11-07]

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Differential removal of human pathogenic viruses from sewage by conventional and ozone treatments.

Wang H, Sikora P, Rutgersson C, ..., Larsson DGJ, Norder H

Int J Hyg Environ Health 221 (3) 479-488 [2018-04-00; online 2018-02-01]

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Conformational landscapes of membrane proteins delineated by enhanced sampling molecular dynamics simulations.

Harpole TJ, Delemotte L

Biochimica et Biophysica Acta (BBA) - Biomembranes 1860 (4) 909-926 [2018-04-00; online 2017-11-04]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

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Confocal super-resolution imaging of the glomerular filtration barrier enabled by tissue expansion.

Unnersjö-Jess D, Scott L, Sevilla SZ, ..., Blom H, Brismar H

Kidney Int. 93 (4) 1008-1013 [2018-04-00; online 2017-12-11]

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Combined ASRGL1 and p53 immunohistochemistry as an independent predictor of survival in endometrioid endometrial carcinoma.

Huvila J, Laajala TD, Edqvist PH, ..., Aittokallio T, Auranen A

Gynecol. Oncol. 149 (1) 173-180 [2018-04-00; online 2018-03-02]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Clinical relevance of integrin alpha 4 in gastrointestinal stromal tumours.

Pulkka OP, Mpindi JP, Tynninen O, ..., Sihto H, Joensuu H

J. Cell. Mol. Med. 22 (4) 2220-2230 [2018-04-00; online 2018-01-29]

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Biological/Genetic Regulation of Physical Activity Level: Consensus from GenBioPAC.

Lightfoot JT, DE Geus EJC, Booth FW, ..., Garland T, Bouchard C

Med Sci Sports Exerc 50 (4) 863-873 [2018-04-00; online 2017-11-23]

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Assembly and structure of the SSU processome-a nucleolar precursor of the small ribosomal subunit.

Barandun J, Hunziker M, Klinge S

Curr. Opin. Struct. Biol. 49 (-) 85-93 [2018-04-00; online 2018-02-04]

Jonas Barandun SciLifeLab Fellow

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An integrated all foil based micro device for point of care diagnostic applications

Bose I, Ohlander A, Kutter C, Russom A

Sensors and Actuators B: Chemical 259 (-) 917-925 [2018-04-00; online 2018-04-00]

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An in vitro evaluation of browser and grazer fermentation efficiency and microbiota using European moose spring and summer foods.

Krizsan SJ, Mateos-Rivera A, Bertilsson S, ..., Gidlund H, Huhtanen P

Ecol Evol 8 (8) 4183-4196 [2018-04-00; online 2018-03-31]

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Improved efficiency of in situ protein analysis by proximity ligation using UnFold probes.

Klaesson A, Grannas K, Ebai T, ..., Söderberg O, Landegren U

Sci Rep 8 (1) 5400 [2018-03-29; online 2018-03-29]

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Targeted Long-Read Sequencing of a Locus Under Long-Term Balancing Selection in Capsella.

Bachmann JA, Tedder A, Laenen B, Steige KA, Slotte T

G3 8 (4) 1327-1333 [2018-03-28; online 2018-03-28]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

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Strong impact on plasma protein profiles by precentrifugation delay but not by repeated freeze-thaw cycles, as analyzed using multiplex proximity extension assays.

Shen Q, Björkesten J, Galli J, ..., Tybring G, Landegren U

Clin. Chem. Lab. Med. 56 (4) 582-594 [2018-03-28; online 2017-10-19]

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PON-tstab: Protein Variant Stability Predictor. Importance of Training Data Quality.

Yang Y, Urolagin S, Niroula A, ..., Shen B, Vihinen M

Int J Mol Sci 19 (4) - [2018-03-28; online 2018-03-28]

Abhishek Niroula DDLS Fellow

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Computer simulations of the catalytic mechanism of wild-type and mutant β-phosphoglucomutase.

Barrozo A, Liao Q, Esguerra M, ..., Williams NH, Kamerlin SCL

Org. Biomol. Chem. 16 (12) 2060-2073 [2018-03-28; online 2018-03-06]

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AMYCNE: Confident copy number assessment using whole genome sequencing data.

Eisfeldt J, Nilsson D, Andersson-Assarsson JC, Lindstrand A

PLoS ONE 13 (3) e0189710 [2018-03-26; online 2018-03-26]

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A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons.

Södersten E, Toskas K, Rraklli V, ..., Perlmann T, Holmberg J

Nat Commun 9 (1) 1226 [2018-03-26; online 2018-03-26]

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Protein Expression in Tonsillar and Base of Tongue Cancer and in Relation to Human Papillomavirus (HPV) and Clinical Outcome.

Ramqvist T, Näsman A, Franzén B, ..., Dalianis T, Munck-Wikland E

Int J Mol Sci 19 (4) - [2018-03-25; online 2018-03-25]

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Suppression of diabetes by accumulation of non-islet-specific CD8 + effector T cells in pancreatic islets.

Christoffersson G, Chodaczek G, Ratliff SS, Coppieters K, von Herrath MG

Sci Immunol 3 (21) - [2018-03-23; online 2018-03-25]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

A Meta-Analysis of Genome-Wide Association Studies of Growth Differentiation Factor-15 Concentration in Blood.

Jiang J, Thalamuthu A, Ho JE, ..., Sachdev PS, Mather KA

Front Genet 9 (-) 97 [2018-03-23; online 2018-03-23]

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Reducing Pericyte-Derived Scarring Promotes Recovery after Spinal Cord Injury.

Dias DO, Kim H, Holl D, ..., Göritz C, Frisén J

Cell 173 (1) 153-165.e22 [2018-03-22; online 2018-03-01]

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Peptide ion channel toxins from the bootlace worm, the longest animal on Earth.

Jacobsson E, Andersson HS, Strand M, ..., Tytgat J, Göransson U

Sci Rep 8 (1) 4596 [2018-03-22; online 2018-03-22]

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Maltreatment, the Oxytocin Receptor Gene, and Conduct Problems Among Male and Female Teenagers.

Andreou D, Comasco E, Åslund C, Nilsson KW, Hodgins S

Front. Hum. Neurosci. 12 (-) 112 [2018-03-22; online 2018-03-22]

Affiliated researcher Erika Comasco SciLifeLab Fellow

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Introduction of Intrinsic Kinetics of Protein-Ligand Interactions and Their Implications for Drug Design.

Linkuvienė V, Talibov VO, Danielson UH, Matulis D

J. Med. Chem. 61 (6) 2292-2302 [2018-03-22; online 2018-03-02]

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Spironaphthoxazine switchable dyes for biological imaging.

Xiong Y, Vargas Jentzsch A, Osterrieth JWM, ..., Eggeling C, Anderson HL

Chem Sci 9 (11) 3029-3040 [2018-03-21; online 2018-02-20]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Role of Ligand-Driven Conformational Changes in Enzyme Catalysis: Modeling the Reactivity of the Catalytic Cage of Triosephosphate Isomerase.

Kulkarni YS, Liao Q, Byléhn F, ..., Richard JP, Kamerlin SCL

J. Am. Chem. Soc. 140 (11) 3854-3857 [2018-03-21; online 2018-03-13]

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Randomised study shows that repeated self-sampling and HPV test has more than two-fold higher detection rate of women with CIN2+ histology than Pap smear cytology.

Gustavsson I, Aarnio R, Berggrund M, ..., Olovsson M, Gyllensten U

Br. J. Cancer 118 (6) 896-904 [2018-03-20; online 2018-02-13]

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A Space Efficient Direct Access Data Compression Approach for Mass Spectrometry Imaging.

Källback P, Nilsson A, Shariatgorji M, Andrén PE

Anal. Chem. 90 (6) 3676-3682 [2018-03-20; online 2018-03-08]

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ILF2 and ILF3 are autoantigens in canine systemic autoimmune disease.

Bremer HD, Landegren N, Sjöberg R, ..., Kämpe O, Hansson-Hamlin H

Sci Rep 8 (1) 4852 [2018-03-19; online 2018-03-19]

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Single molecule real-time (SMRT) sequencing comes of age: applications and utilities for medical diagnostics.

Ardui S, Ameur A, Vermeesch JR, Hestand MS

Nucleic Acids Res. 46 (5) 2159-2168 [2018-03-16; online 2018-02-06]

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Mutational signatures reveal the role of RAD52 in p53-independent p21-driven genomic instability.

Galanos P, Pappas G, Polyzos A, ..., Bartek J, Gorgoulis VG

Genome Biol. 19 (1) 37 [2018-03-16; online 2018-03-16]

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A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage.

Ladds MJGW, van Leeuwen IMM, Drummond CJ, ..., McCormack E, Laín S

Nat Commun 9 (1) 1107 [2018-03-16; online 2018-03-16]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

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Protein profiling in serum after traumatic brain injury in rats reveals potential injury markers.

Thelin EP, Just D, Frostell A, ..., Nilsson P, Bellander BM

Behav. Brain Res. 340 (-) 71-80 [2018-03-15; online 2016-08-31]

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Lipids Shape the Electron Acceptor-Binding Site of the Peripheral Membrane Protein Dihydroorotate Dehydrogenase.

Costeira-Paulo J, Gault J, Popova G, ..., Marklund EG, Landreh M

Cell Chem Biol 25 (3) 309-317.e4 [2018-03-15; online 2018-01-18]

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Distribution and drivers of symbiotic and free-living diazotrophic cyanobacteria in the western tropical South Pacific

Stenegren M, Caputo A, Berg C, Bonnet S, Foster RA

Biogeosciences 15 (5) 1559-1578 [2018-03-15; online 2018-03-15]

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Wing bone geometry reveals active flight in Archaeopteryx.

Voeten DFAE, Cubo J, de Margerie E, ..., Tafforeau P, Sanchez S

Nat Commun 9 (1) 923 [2018-03-13; online 2018-03-13]

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Structural Transitions in Ceramide Cubic Phases during Formation of the Human Skin Barrier.

Wennberg CL, Narangifard A, Lundborg M, Norlén L, Lindahl E

Biophys. J. 114 (5) 1116-1127 [2018-03-13; online 2018-03-15]

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A comprehensive genomic history of extinct and living elephants.

Palkopoulou E, Lipson M, Mallick S, ..., Poinar H, Reich D

Proc. Natl. Acad. Sci. U.S.A. 115 (11) E2566-E2574 [2018-03-13; online 2018-02-26]

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High-resolution detection of chromosomal rearrangements in leukemias through mate pair whole genome sequencing.

Tran AN, Taylan F, Zachariadis V, ..., Nilsson D, Barbany G

PLoS ONE 13 (3) e0193928 [2018-03-12; online 2018-03-12]

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Membrane protein serendipity.

von Heijne G

J. Biol. Chem. 293 (10) 3470-3476 [2018-03-09; online 2018-03-11]

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Rapid Nanoprobe Signal Enhancement by In Situ Gold Nanoparticle Synthesis.

Dias JT, Svedberg G, Nystrand M, Andersson-Svahn H, Gantelius J

J Vis Exp - (133) - [2018-03-07; online 2018-03-07]

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Sexual dimorphism in the width of the mouse synaptonemal complex.

Agostinho A, Kouznetsova A, Hernández-Hernández A, ..., Brismar H, Höög C

J. Cell. Sci. 131 (5) - [2018-03-06; online 2018-03-06]

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Characterization of the human RFX transcription factor family by regulatory and target gene analysis.

Sugiaman-Trapman D, Vitezic M, Jouhilahti EM, ..., Kere J, Swoboda P

BMC Genomics 19 (1) 181 [2018-03-06; online 2018-03-06]

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CEP128 Localizes to the Subdistal Appendages of the Mother Centriole and Regulates TGF-β/BMP Signaling at the Primary Cilium.

Mönnich M, Borgeskov L, Breslin L, ..., Larsen LA, Pedersen LB

Cell Reports 22 (10) 2584-2592 [2018-03-06; online 2018-03-08]

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Targeting CDK2 overcomes melanoma resistance against BRAF and Hsp90 inhibitors.

Azimi A, Caramuta S, Seashore-Ludlow B, ..., Uhlen M, Maddalo G

Mol Syst Biol 14 (3) e7858 [2018-03-05; online 2018-03-05]

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DNA methylation holds prognostic information in relapsed precursor B-cell acute lymphoblastic leukemia.

Borssén M, Nordlund J, Haider Z, ..., Lönnerholm G, Degerman S

Clin Epigenetics 10 (-) 31 [2018-03-05; online 2018-03-05]

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Synthesis of Galactosylated Glycosylphosphatidylinositol Derivatives from Trypanosoma brucei.

Grube M, Lee BY, Garg M, ..., Seeberger PH, Varón Silva D

Chemistry 24 (13) 3271-3282 [2018-03-02; online 2018-02-01]

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Influenza Hemifusion Phenotype Depends on Membrane Context: Differences in Cell-Cell and Virus-Cell Fusion.

Zawada KE, Okamoto K, Kasson PM

J. Mol. Biol. 430 (5) 594-601 [2018-03-02; online 2018-02-02]

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Discovery of coding regions in the human genome by integrated proteogenomics analysis workflow.

Zhu Y, Orre LM, Johansson HJ, ..., Branca RMM, Lehtiö J

Nat Commun 9 (1) 903 [2018-03-02; online 2018-03-02]

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TGF-β Family Signaling in Ductal Differentiation and Branching Morphogenesis.

Kahata K, Maturi V, Moustakas A

Cold Spring Harbor Perspectives in Biology 10 (3) - [2018-03-01; online 2018-03-01]

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STAT3/p53 pathway activation disrupts IFN-β-induced dormancy in tumor-repopulating cells.

Liu Y, Lv J, Liu J, ..., Qin FX, Huang B

J. Clin. Invest. 128 (3) 1057-1073 [2018-03-01; online 2018-02-12]

Affiliated researcher

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Perspective: APOBEC mutagenesis in drug resistance and immune escape in HIV and cancer evolution.

Venkatesan S, Rosenthal R, Kanu N, ..., Harris RS, Swanton C

Ann. Oncol. 29 (3) 563-572 [2018-03-01; online 2018-01-13]

Affiliated researcher

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Impact of genetic risk loci for multiple sclerosis on expression of proximal genes in patients.

James T, Lindén M, Morikawa H, ..., Gomez-Cabrero D, Kockum I

Hum. Mol. Genet. 27 (5) 912-928 [2018-03-01; online 2018-01-13]

Affiliated researcher

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Genetic variants influencing phenotypic variance heterogeneity.

Ek WE, Rask-Andersen M, Karlsson T, ..., Gyllensten U, Johansson Å

Hum. Mol. Genet. 27 (5) 799-810 [2018-03-01; online 2018-01-13]

Affiliated researcher

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The neutrophil: one cell on many missions or many cells with different agendas?

Christoffersson G, Phillipson M

Cell Tissue Res. 371 (3) 415-423 [2018-03-00; online 2018-02-12]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Small molecule PGC-1α1 protein stabilizers induce adipocyte Ucp1 expression and uncoupled mitochondrial respiration.

Pettersson-Klein AT, Izadi M, Ferreira DMS, ..., Griffin PR, Ruas JL

Mol Metab 9 (-) 28-42 [2018-03-00; online 2018-02-03]

Affiliated researcher

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Slime mould: The fundamental mechanisms of biological cognition.

Vallverdú J, Castro O, Mayne R, ..., Zenil H, Adamatzky A

BioSystems 165 (-) 57-70 [2018-03-00; online 2018-01-08]

Affiliated researcher

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Recon3D enables a three-dimensional view of gene variation in human metabolism.

Brunk E, Sahoo S, Zielinski DC, ..., Thiele I, Palsson BO

Nat. Biotechnol. 36 (3) 272-281 [2018-03-00; online 2018-02-19]

Avlant Nilsson DDLS Fellow

PubMed DOI Crossref

Nubbin isoform antagonism governs Drosophila intestinal immune homeostasis.

Lindberg BG, Tang X, Dantoft W, ..., Lindvall JM, Engström Y

PLoS Pathog 14 (3) e1006936 [2018-03-00; online 2018-03-02]

Affiliated researcher

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Methods for estimation of model accuracy in CASP12.

Elofsson A, Joo K, Keasar C, ..., Uziela K, Wallner B

Proteins 86 Suppl 1 (-) 361-373 [2018-03-00; online 2017-10-17]

Affiliated researcher

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In Situ Detection and Quantification of AR-V7, AR-FL, PSA, and

El-Heliebi A, Hille C, Laxman N, ..., Nilsson M, Sedlmayr P

Clin. Chem. 64 (3) 536-546 [2018-03-00; online 2018-01-04]

Affiliated researcher

PubMed DOI Crossref

Hypericin affects cancer side populations via competitive inhibition of BCRP.

Vargová J, Mikeš J, Jendželovský R, ..., Kozubík A, Fedoročko P

Biomed. Pharmacother. 99 (-) 511-522 [2018-03-00; online 2018-02-20]

Affiliated researcher

DOI Crossref

High methylmercury formation in ponds fueled by fresh humic and algal derived organic matter

Herrero Ortega S, Catalán N, Björn E, ..., Levanoni O, Bravo AG

Limnol. Oceanogr. 63 (S1) S44-S53 [2018-03-00; online 2017-11-10]

Affiliated researcher

PubMed DOI Crossref

Geobacteraceae are important members of mercury-methylating microbial communities of sediments impacted by waste water releases.

Bravo AG, Zopfi J, Buck M, ..., Poté J, Cosio C

ISME J 12 (3) 802-812 [2018-03-00; online 2018-01-10]

Affiliated researcher

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Fluorescent Diarylethene Photoswitches-A Universal Tool for Super-Resolution Microscopy in Nanostructured Materials.

Nevskyi O, Sysoiev D, Dreier J, ..., Huhn T, Wöll D

Small 14 (10) 1703333 [2018-03-00; online 2018-01-11]

Affiliated researcher Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

First de novo whole genome sequencing and assembly of the pink-footed goose.

Pujolar JM, Dalén L, Olsen RA, Hansen MM, Madsen J

Genomics 110 (2) 75-79 [2018-03-00; online 2017-08-30]

Affiliated researcher

DOI Crossref

Femtosecond X-ray Fourier holography imaging of free-flying nanoparticles

Gorkhover T, Ulmer A, Ferguson K, ..., Hajdu J, Bostedt C

Nature Photon 12 (3) 150-153 [2018-03-00; online 2018-02-26]

Affiliated researcher

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Diffuse intrinsic pontine gliomas (DIPG) at recurrence: is there a window to test new therapies in some patients?

Lobon-Iglesias MJ, Giraud G, Castel D, ..., Varlet P, Grill J

J. Neurooncol. 137 (1) 111-118 [2018-03-00; online 2017-12-02]

Affiliated researcher

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Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations.

Garcia SL, Stevens SLR, Crary B, ..., Malmstrom RR, McMahon KD

ISME J 12 (3) 742-755 [2018-03-00; online 2017-12-08]

Affiliated researcher Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

Associations Between MAOA-uVNTR Genotype, Maltreatment, MAOA Methylation, and Alcohol Consumption in Young Adult Males.

Bendre M, Comasco E, Checknita D, ..., Hodgins S, Nilsson KW

Alcohol Clin Exp Res 42 (3) 508-519 [2018-03-00; online 2018-01-31]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

An Integrated Understanding of the Rapid Metabolic Benefits of a Carbohydrate-Restricted Diet on Hepatic Steatosis in Humans

Mardinoglu A, Wu H, Bjornson E, ..., Taskinen MR, Borén J

Cell Metabolism 27 (3) 559-571.e5 [2018-03-00; online 2018-03-00]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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A genomic map of clinal variation across the European rabbit hybrid zone.

Rafati N, Blanco-Aguiar JA, Rubin CJ, ..., Andersson L, Carneiro M

Mol. Ecol. 27 (6) 1457-1478 [2018-03-00; online 2018-02-11]

Affiliated researcher

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Integrative Personal Omics Profiles during Periods of Weight Gain and Loss.

Piening BD, Zhou W, Contrepois K, ..., Weinstock GM, Snyder MP

Cell Systems 6 (2) 157-170.e8 [2018-02-28; online 2018-01-17]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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GeneGini: Assessment via the Gini Coefficient of Reference "Housekeeping" Genes and Diverse Human Transporter Expression Profiles.

O'Hagan S, Wright Muelas M, Day PJ, Lundberg E, Kell DB

Cell Systems 6 (2) 230-244.e1 [2018-02-28; online 2018-02-07]

Affiliated researcher

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Current applications of antibody microarrays.

Chen Z, Dodig-Crnković T, Schwenk JM, Tao SC

Clin Proteomics 15 (-) 7 [2018-02-28; online 2018-02-28]

Affiliated researcher

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Cholesterol enhances influenza binding avidity by controlling nanoscale receptor clustering.

Goronzy IN, Rawle RJ, Boxer SG, Kasson PM

Chem Sci 9 (8) 2340-2347 [2018-02-28; online 2018-01-24]

Affiliated researcher

PubMed DOI Crossref

The ZBED6-IGF2 axis has a major effect on growth of skeletal muscle and internal organs in placental mammals.

Younis S, Schönke M, Massart J, ..., Zierath JR, Andersson L

Proc. Natl. Acad. Sci. U.S.A. 115 (9) E2048-E2057 [2018-02-27; online 2018-02-12]

Affiliated researcher

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Identification of Discriminating Metabolic Pathways and Metabolites in Human PBMCs Stimulated by Various Pathogenic Agents.

Zhang X, Mardinoglu A, Joosten LAB, ..., Netea MG, Groen AK

Front. Physiol. 9 (-) 139 [2018-02-27; online 2018-02-27]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Prediction of Ordered Water Molecules in Protein Binding Sites from Molecular Dynamics Simulations: The Impact of Ligand Binding on Hydration Networks.

Rudling A, Orro A, Carlsson J

J Chem Inf Model 58 (2) 350-361 [2018-02-26; online 2018-02-05]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Somatic mutagenesis in satellite cells associates with human skeletal muscle aging.

Franco I, Johansson A, Olsson K, ..., Fischer H, Eriksson M

Nat Commun 9 (1) 800 [2018-02-23; online 2018-02-23]

Affiliated researcher

PubMed DOI Crossref

Symbiosis in the microbial world: from ecology to genome evolution.

Raina JB, Eme L, Pollock FJ, ..., Archibald JM, Williams TA

Biol Open 7 (2) - [2018-02-22; online 2018-02-22]

Affiliated researcher

DOI Crossref

Interferometric scattering (iSCAT) microscopy: studies of biological membrane dynamics

Reina F, Galiani S, Shrestha D, ..., Eggeling C, Cole D

- - (-) - [2018-02-20; online 2018-02-20]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Antibodies in children with malaria to PfEMP1, RIFIN and SURFIN expressed at the Plasmodium falciparum parasitized red blood cell surface.

Quintana MDP, Ch'ng JH, Moll K, ..., Qundos U, Wahlgren M

Sci Rep 8 (1) 3262 [2018-02-19; online 2018-02-19]

Affiliated researcher

PubMed DOI Crossref

JUNB governs a feed-forward network of TGFβ signaling that aggravates breast cancer invasion.

Sundqvist A, Morikawa M, Ren J, ..., van Dam H, Ten Dijke P

Nucleic Acids Res. 46 (3) 1180-1195 [2018-02-16; online 2017-12-01]

Affiliated researcher

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HiCapTools: a software suite for probe design and proximity detection for targeted chromosome conformation capture applications.

Anil A, Spalinskas R, Åkerborg Ö, Sahlén P, Berger B

Bioinformatics 34 (4) 675-677 [2018-02-15; online 2018-02-15]

Affiliated researcher

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Permeability and ammonia selectivity in aquaporin TIP2;1: linking structure to function.

Lindahl V, Gourdon P, Andersson M, Hess B

Sci Rep 8 (1) 2995 [2018-02-14; online 2018-02-14]

Affiliated researcher

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How many human proteoforms are there?

Aebersold R, Agar JN, Amster IJ, ..., Young NL, Zhang B

Nat. Chem. Biol. 14 (3) 206-214 [2018-02-14; online 2018-02-15]

Affiliated researcher

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Affinity proteomic profiling of plasma for proteins associated to area-based mammographic breast density.

Byström S, Eklund M, Hong MG, ..., Schwenk JM, Gabrielson M

Breast Cancer Res. 20 (1) 14 [2018-02-14; online 2018-02-14]

Affiliated researcher

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Advancing the immunoaffinity platform AFFIRM to targeted measurements of proteins in serum in the pg/ml range.

Säll A, Corbee D, Vikström S, ..., Persson H, Waldemarson S

PLoS ONE 13 (2) e0189116 [2018-02-13; online 2018-02-13]

Affiliated researcher

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Efficient DNA-assisted synthesis of trans-membrane gold nanowires

Guo M, Hernández-Neuta I, Madaboosi N, Nilsson M, van der Wijngaart W

Microsyst. Nanoeng. 4 (-) 17084 [2018-02-12; online 2018-02-12]

Affiliated researcher

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High prevalence of gait abnormalities in pugs.

Rohdin C, Jäderlund KH, Ljungvall I, Lindblad-Toh K, Häggström J

Vet. Rec. 182 (6) 167 [2018-02-10; online 2018-02-05]

Affiliated researcher

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A flow-through nanoporous alumina trypsin bioreactor for mass spectrometry peptide fingerprinting.

Kjellander M, Billinger E, Ramachandraiah H, ..., Bergström Lind S, Johansson G

J Proteomics 172 (-) 165-172 [2018-02-10; online 2017-09-21]

Affiliated researcher

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Evolution of neuropeptide signalling systems.

Elphick MR, Mirabeau O, Larhammar D

J. Exp. Biol. 221 (Pt 3) - [2018-02-09; online 2018-02-09]

Affiliated researcher

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Particle Manipulation Methods in Droplet Microfluidics.

Tenje M, Fornell A, Ohlin M, Nilsson J

Anal. Chem. 90 (3) 1434-1443 [2018-02-06; online 2017-12-21]

Affiliated researcher

PubMed DOI Crossref

MonoRes: Automatic and Accurate Estimation of Local Resolution for Electron Microscopy Maps.

Vilas JL, Gómez-Blanco J, Conesa P, ..., Vargas J, Sorzano COS

Structure 26 (2) 337-344.e4 [2018-02-06; online 2018-01-27]

Affiliated researcher

PubMed DOI Crossref

MYCN-amplified neuroblastoma maintains an aggressive and undifferentiated phenotype by deregulation of estrogen and NGF signaling.

Dzieran J, Rodriguez Garcia A, Westermark UK, ..., Lehtiö J, Arsenian-Henriksson M

Proc. Natl. Acad. Sci. U.S.A. 115 (6) E1229-E1238 [2018-02-06; online 2018-01-26]

Affiliated researcher

PubMed DOI Crossref

Kynurenic Acid and Gpr35 Regulate Adipose Tissue Energy Homeostasis and Inflammation.

Agudelo LZ, Ferreira DMS, Cervenka I, ..., Berggren PO, Ruas JL

Cell Metab. 27 (2) 378-392.e5 [2018-02-06; online 2018-02-08]

Affiliated researcher

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Human NUDT22 Is a UDP-Glucose/Galactose Hydrolase Exhibiting a Unique Structural Fold.

Carter M, Jemth AS, Carreras-Puigvert J, ..., Helleday T, Stenmark P

Structure 26 (2) 295-303.e6 [2018-02-06; online 2018-02-08]

Affiliated researcher

PubMed DOI Crossref

Crystal Structures and Inhibitor Interactions of Mouse and Dog MTH1 Reveal Species-Specific Differences in Affinity.

Narwal M, Jemth AS, Gustafsson R, ..., Helleday T, Stenmark P

Biochemistry 57 (5) 593-603 [2018-02-06; online 2018-01-16]

Affiliated researcher

PubMed DOI Crossref

Basal Ganglia Neuromodulation Over Multiple Temporal and Structural Scales-Simulations of Direct Pathway MSNs Investigate the Fast Onset of Dopaminergic Effects and Predict the Role of Kv4.2.

Lindroos R, Dorst MC, Du K, ..., Silberberg G, Hellgren Kotaleski J

Front Neural Circuits 12 (-) 3 [2018-02-06; online 2018-02-06]

Affiliated researcher

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Phenotypic co-receptor tropism and Maraviroc sensitivity in HIV-1 subtype C from East Africa.

Siddik AB, Haas A, Rahman MS, ..., Klimkait T, Neogi U

Sci Rep 8 (1) 2363 [2018-02-05; online 2018-02-05]

Affiliated researcher

PubMed DOI Crossref

ITGB1-dependent upregulation of Caveolin-1 switches TGFβ signalling from tumour-suppressive to oncogenic in prostate cancer.

Pellinen T, Blom S, Sánchez S, ..., Kallioniemi O, Del Pozo MA

Sci Rep 8 (1) 2338 [2018-02-05; online 2018-02-05]

Affiliated researcher

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Binary particle separation in droplet microfluidics using acoustophoresis

Fornell A, Cushing K, Nilsson J, Tenje M

Appl. Phys. Lett. 112 (6) 063701 [2018-02-05; online 2018-02-05]

Affiliated researcher

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Mechanism of Peptide Binding and Cleavage by the Human Mitochondrial Peptidase Neurolysin.

Teixeira PF, Masuyer G, Pinho CM, ..., Stenmark P, Glaser E

J. Mol. Biol. 430 (3) 348-362 [2018-02-02; online 2017-11-26]

Affiliated researcher

PubMed DOI Crossref

Synaptic markers of cognitive decline in neurodegenerative diseases: a proteomic approach.

Bereczki E, Branca RM, Francis PT, ..., Lehtiö J, Aarsland D

Brain 141 (2) 582-595 [2018-02-01; online 2018-01-13]

Affiliated researcher

PubMed DOI Crossref

Origin and Evolution of the Bartonella Gene Transfer Agent.

Tamarit D, Neuvonen MM, Engel P, Guy L, Andersson SGE

Mol. Biol. Evol. 35 (2) 451-464 [2018-02-01; online 2017-11-22]

Affiliated researcher

PubMed DOI Crossref

Formation of mercury methylation hotspots as a consequence of forestry operations.

Eklöf K, Bishop K, Bertilsson S, ..., Kronberg RM, Bravo AG

Sci. Total Environ. 613-614 (-) 1069-1078 [2018-02-01; online 2017-09-22]

Affiliated researcher

PubMed DOI Crossref

Evolution of the receptors for growth hormone, prolactin, erythropoietin and thrombopoietin in relation to the vertebrate tetraploidizations.

Ocampo Daza D, Larhammar D

Gen. Comp. Endocrinol. 257 (-) 143-160 [2018-02-01; online 2017-06-23]

Affiliated researcher

PubMed DOI Crossref

U-CAN: a prospective longitudinal collection of biomaterials and clinical information from adult cancer patients in Sweden.

Glimelius B, Melin B, Enblad G, ..., Palmqvist R, Sjöblom T

Acta Oncol 57 (2) 187-194 [2018-02-00; online 2017-06-20]

Affiliated researcher

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Targeted proteomic analysis of habitual coffee consumption.

Cornelis MC, Gustafsson S, Ärnlöv J, ..., Lind L, Ingelsson E

J. Intern. Med. 283 (2) 200-211 [2018-02-00; online 2017-11-16]

Affiliated researcher

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Quantitative image analysis of protein expression and colocalisation in skin sections.

Zhang H, Ericsson M, Virtanen M, ..., Vahlquist A, Törmä H

Exp. Dermatol. 27 (2) 196-199 [2018-02-00; online 2018-01-09]

Affiliated researcher

PubMed DOI Crossref

Protection goals must guide risk assessment for antibiotics.

Bengtsson-Palme J, Larsson DGJ

Environ Int 111 (-) 352-353 [2018-02-00; online 2017-10-31]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Probing the activity of a recombinant Zn

Ravishankar H, Barth A, Andersson M

Biopolymers 109 (2) - [2018-02-00; online 2017-11-23]

Affiliated researcher

PubMed DOI Crossref

Plasma soluble factor following two decades prolonged suppressive antiretroviral therapy in HIV-1-positive males: A cross-sectional study.

Sperk M, Zhang W, Nowak P, Neogi U

Medicine (Baltimore) 97 (5) e9759 [2018-02-00; online 2018-02-01]

Affiliated researcher

PubMed DOI Crossref

PFOS induces proliferation, cell-cycle progression, and malignant phenotype in human breast epithelial cells.

Pierozan P, Karlsson O

Arch. Toxicol. 92 (2) 705-716 [2018-02-00; online 2017-10-23]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Iodine-lithium-alpha-dextrin (ILαD) against Staphylococcus aureus skin infections: a comparative study of in-vitro bactericidal activity and cytotoxicity between ILαD and povidone-iodine.

Zisi AP, Exindari MK, Siska EK, Koliakos GG

J. Hosp. Infect. 98 (2) 134-140 [2018-02-00; online 2017-07-20]

Affiliated researcher

PubMed DOI Crossref

In situ protein detection with enhanced specificity using DNA-conjugated antibodies and proximity ligation.

Zieba A, Ponten F, Uhlén M, Landegren U

Mod. Pathol. 31 (2) 253-263 [2018-02-00; online 2017-09-22]

Affiliated researcher

PubMed DOI Crossref

In Vivo Visualization of β-Cells by Targeting of GPR44.

Eriksson O, Johnström P, Cselenyi Z, ..., Skrtic S, Korsgren O

Diabetes 67 (2) 182-192 [2018-02-00; online 2017-12-05]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Evaluation of Post-Mortem Effects on Global Brain DNA Methylation and Hydroxymethylation.

Sjöholm LK, Ransome Y, Ekström TJ, Karlsson O

Basic Clin. Pharmacol. Toxicol. 122 (2) 208-213 [2018-02-00; online 2017-11-13]

Oskar Karlsson SciLifeLab Fellow

PubMed DOI Crossref

Enzymatic degradation of hyaluronan hydrogels with different capacity for in situ bio-mineralization.

Shi L, Zhang Y, Ossipov D

Biopolymers 109 (2) - [2018-02-00; online 2017-11-27]

Affiliated researcher

PubMed DOI Crossref

Conserved properties of dentate gyrus neurogenesis across postnatal development revealed by single-cell RNA sequencing.

Hochgerner H, Zeisel A, Lönnerberg P, Linnarsson S

Nat. Neurosci. 21 (2) 290-299 [2018-02-00; online 2018-01-15]

Affiliated researcher

PubMed DOI Crossref

Comparative Action of Cardiotonic Steroids on Intracellular Processes in Rat Cortical Neurons.

Lopachev AV, Lopacheva OM, Nikiforova KA, ..., Fedorova TN, Akkuratov EE

Biochemistry Mosc. 83 (2) 140-151 [2018-02-00; online 2018-04-06]

Affiliated researcher

PubMed DOI Crossref

Asian horses deepen the MSY phylogeny.

Felkel S, Vogl C, Rigler D, ..., Brem G, Wallner B

Anim. Genet. 49 (1) 90-93 [2018-02-00; online 2018-01-15]

Affiliated researcher

DOI Crossref

Archaeal community changes in Lateglacial lake sediments: Evidence from ancient DNA

Ahmed E, Parducci L, Unneberg P, ..., Slotte T, Wohlfarth B

Quaternary Science Reviews 181 (-) 19-29 [2018-02-00; online 2018-02-00]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

A DNA methylation biomarker of alcohol consumption.

Liu C, Marioni RE, Hedman ÅK, ..., Ingelsson E, Levy D

Mol. Psychiatry 23 (2) 422-433 [2018-02-00; online 2016-11-15]

Affiliated researcher

PubMed DOI Crossref

Structural elucidation of major selective androgen receptor modulator (SARM) metabolites for doping control.

Garg N, Hansson A, Knych HK, ..., Hedeland M, Globisch D

Org. Biomol. Chem. 16 (5) 698-702 [2018-01-31; online 2018-01-11]

Affiliated researcher Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Driving Protein Conformational Changes with Light: Photoinduced Structural Rearrangement in a Heterobimetallic Oxidase.

Maugeri PT, Griese JJ, Branca RM, ..., Högbom M, Shafaat HS

J. Am. Chem. Soc. 140 (4) 1471-1480 [2018-01-31; online 2018-01-22]

Affiliated researcher

PubMed DOI Crossref

Anti-Rift Valley fever virus activity in vitro, pre-clinical pharmacokinetics and oral bioavailability of benzavir-2, a broad-acting antiviral compound.

Islam MK, Strand M, Saleeb M, ..., Elofsson M, Evander M

Sci Rep 8 (1) 1925 [2018-01-31; online 2018-01-31]

Affiliated researcher

PubMed DOI Crossref

A Single Bout of Electroacupuncture Remodels Epigenetic and Transcriptional Changes in Adipose Tissue in Polycystic Ovary Syndrome.

Kokosar M, Benrick A, Perfilyev A, ..., Ling C, Stener-Victorin E

Sci Rep 8 (1) 1878 [2018-01-30; online 2018-01-30]

Affiliated researcher

PubMed DOI Crossref

Patterns of variation in cis-regulatory regions: examining evidence of purifying selection.

Naidoo T, Sjödin P, Schlebusch C, Jakobsson M

BMC Genomics 19 (1) 95 [2018-01-26; online 2018-01-26]

Affiliated researcher

PubMed DOI Crossref

Undecidability and Irreducibility Conditions for Open-Ended Evolution and Emergence.

Hernández-Orozco S, Hernández-Quiroz F, Zenil H

Artif. Life 24 (1) 56-70 [2018-01-25; online 2018-01-25]

Affiliated researcher

PubMed DOI Crossref

Metabolome dynamics of diapause in the butterfly

Lehmann P, Pruisscher P, Koštál V, ..., Wheat CW, Gotthard K

J. Exp. Biol. 221 (Pt 2) - [2018-01-25; online 2018-01-25]

Affiliated researcher

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The Charlson Comorbidity Index in Registry-based Research.

Brusselaers N, Lagergren J

Methods Inf Med 56 (5) 401-406 [2018-01-24; online 2018-01-24]

Affiliated researcher

PubMed DOI Crossref

Broad Views of Non-alcoholic Fatty Liver Disease.

Mardinoglu A, Uhlen M, Borén J

Cell Systems 6 (1) 7-9 [2018-01-24; online 2018-02-06]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Demography and mating system shape the genome-wide impact of purifying selection in Arabis alpina.

Laenen B, Tedder A, Nowak MD, ..., Coupland G, Slotte T

Proc. Natl. Acad. Sci. U.S.A. 115 (4) 816-821 [2018-01-23; online 2018-01-04]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

A caspase-2-RFXANK interaction and its implication for MHC class II expression.

Forsberg J, Li X, Akpinar B, ..., Zhivotovsky B, Olsson M

Cell Death Dis 9 (2) 80 [2018-01-23; online 2018-01-23]

Affiliated researcher

PubMed DOI Crossref

Translational study reveals a two-faced role of RBM3 in pancreatic cancer and suggests its potential value as a biomarker for improved patient stratification.

Karnevi E, Dror LB, Mardinoglu A, ..., Uhlén M, Jirström K

Oncotarget 9 (5) 6188-6200 [2018-01-19; online 2017-12-15]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Consequences of Epithelial Inflammasome Activation by Bacterial Pathogens.

Sellin ME, Müller AA, Hardt WD

J. Mol. Biol. 430 (2) 193-206 [2018-01-19; online 2017-04-25]

Affiliated researcher Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Targeted NUDT5 inhibitors block hormone signaling in breast cancer cells.

Page BDG, Valerie NCK, Wright RHG, ..., Beato M, Helleday T

Nat Commun 9 (1) 250 [2018-01-17; online 2018-01-17]

Affiliated researcher

PubMed DOI Crossref

Light-activatable prodrugs based on hyaluronic acid biomaterials.

Ossipov DA, Romero AB, Ossipova E

Carbohydr Polym 180 (-) 145-155 [2018-01-15; online 2017-10-06]

Affiliated researcher

PubMed DOI Crossref

Intelligent image-based in situ single-cell isolation.

Brasko C, Smith K, Molnar C, ..., Tamas G, Horvath P

Nat Commun 9 (1) 226 [2018-01-15; online 2018-01-15]

Affiliated researcher

PubMed DOI Crossref

Increased Expression of GLP-1R in Proliferating Islets of Men1 Mice is Detectable by [68Ga]Ga-DO3A-VS-Cys40-Exendin-4 /PET.

Monazzam A, Lau J, Velikyan I, ..., Eriksson O, Skogseid B

Sci Rep 8 (1) 748 [2018-01-15; online 2018-01-15]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Splicing of platelet resident pre-mRNAs upon activation by physiological stimuli results in functionally relevant proteome modifications.

Nassa G, Giurato G, Cimmino G, ..., Weisz A, Tarallo R

Sci Rep 8 (1) 498 [2018-01-11; online 2018-01-11]

Affiliated researcher

PubMed DOI Crossref

Impacts of feeding preweaned calves milk containing drug residues on the functional profile of the fecal microbiota.

Pereira RVV, Carroll LM, Lima S, ..., Bicalho RC, Warnick LD

Sci Rep 8 (1) 554 [2018-01-11; online 2018-01-11]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Genetic factors have a major effect on growth, number of vertebrae and otolith shape in Atlantic herring (Clupea harengus).

Berg F, Almeland OW, Skadal J, ..., Andersson L, Folkvord A

PLoS ONE 13 (1) e0190995 [2018-01-11; online 2018-01-11]

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Citrullinated histone H3 as a novel prognostic blood marker in patients with advanced cancer.

Thålin C, Lundström S, Seignez C, ..., Wallén H, Demers M

PLoS ONE 13 (1) e0191231 [2018-01-11; online 2018-01-11]

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Intersubband Quantum Disc-in-Nanowire Photodetectors with Normal-Incidence Response in the Long-Wavelength Infrared.

Karimi M, Heurlin M, Limpert S, ..., Borgström MT, Pettersson H

Nano Lett. 18 (1) 365-372 [2018-01-10; online 2017-12-27]

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Differences in Expansion Potential of Naive Chimeric Antigen Receptor T Cells from Healthy Donors and Untreated Chronic Lymphocytic Leukemia Patients.

Hoffmann JM, Schubert ML, Wang L, ..., Dreger P, Schmitt M

Front Immunol 8 (-) 1956 [2018-01-10; online 2018-01-10]

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A prototypical non-malignant epithelial model to study genome dynamics and concurrently monitor micro-RNAs and proteins in situ during oncogene-induced senescence.

Komseli ES, Pateras IS, Krejsgaard T, ..., Bartek J, Gorgoulis VG

BMC Genomics 19 (1) 37 [2018-01-10; online 2018-01-10]

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The RNA Polymerase II Factor RPAP1 Is Critical for Mediator-Driven Transcription and Cell Identity.

Lynch CJ, Bernad R, Calvo I, ..., Munoz J, Serrano M

Cell Reports 22 (2) 396-410 [2018-01-09; online 2018-01-11]

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TUFT1 interacts with RABGAP1 and regulates mTORC1 signaling.

Kawasaki N, Isogaya K, Dan S, ..., Miyazono K, Koinuma D

Cell Discov 4 (-) 1 [2018-01-09; online 2018-01-09]

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Polysome-profiling in small tissue samples.

Liang S, Bellato HM, Lorent J, ..., Hajj GNM, Larsson O

Nucleic Acids Res. 46 (1) e3 [2018-01-09; online 2017-10-27]

Affiliated researcher

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Inference of Calmodulin's Ca2+-Dependent Free Energy Landscapes via Gaussian Mixture Model Validation.

Westerlund AM, Harpole TJ, Blau C, Delemotte L

J Chem Theory Comput 14 (1) 63-71 [2018-01-09; online 2017-12-06]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

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Ancient polymorphisms and divergence hitchhiking contribute to genomic islands of divergence within a poplar species complex.

Ma T, Wang K, Hu Q, ..., Nevo E, Liu J

Proc. Natl. Acad. Sci. U.S.A. 115 (2) E236-E243 [2018-01-09; online 2017-12-26]

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Taxonomic annotation of public fungal ITS sequences from the built environment - a report from an April 10-11, 2017 workshop (Aberdeen, UK).

Nilsson RH, Taylor AFS, Adams RI, ..., Kõljalg U, Abarenkov K

MycoKeys - (28) 65-82 [2018-01-08; online 2018-01-08]

DDLS Fellow Johan Bengtsson-Palme

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Discovering viral genomes in human metagenomic data by predicting unknown protein families.

Barrientos-Somarribas M, Messina DN, Pou C, ..., Andersson B, Sonnhammer ELL

Sci Rep 8 (1) 28 [2018-01-08; online 2018-01-08]

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TCSBN: a database of tissue and cancer specific biological networks.

Lee S, Zhang C, Arif M, ..., Uhlen M, Mardinoglu A

Nucleic Acids Res. 46 (D1) D595-D600 [2018-01-04; online 2017-10-27]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Linking FOXO3, NCOA3, and TCF7L2 to Ras pathway phenotypes through a genome-wide forward genetic screen in human colorectal cancer cells.

Kundu S, Ali MA, Handin N, ..., Hellström M, Sjöblom T

Genome Med 10 (1) 2 [2018-01-04; online 2018-01-04]

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Glyoxal as an alternative fixative to formaldehyde in immunostaining and super-resolution microscopy.

Richter KN, Revelo NH, Seitz KJ, ..., Zapiec B, Rizzoli SO

EMBO J. 37 (1) 139-159 [2018-01-04; online 2017-11-16]

Affiliated researcher Ilaria Testa SciLifeLab Fellow

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Genome-wide Study of Atrial Fibrillation Identifies Seven Risk Loci and Highlights Biological Pathways and Regulatory Elements Involved in Cardiac Development.

Nielsen JB, Fritsche LG, Zhou W, ..., Hveem K, Willer CJ

Am. J. Hum. Genet. 102 (1) 103-115 [2018-01-04; online 2017-12-28]

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FunCoup 4: new species, data, and visualization.

Ogris C, Guala D, Sonnhammer ELL

Nucleic Acids Res. 46 (D1) D601-D607 [2018-01-04; online 2017-11-23]

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TGF-β Family Signaling in Epithelial Differentiation and Epithelial-Mesenchymal Transition.

Kahata K, Dadras MS, Moustakas A

Cold Spring Harbor Perspectives in Biology 10 (1) - [2018-01-02; online 2018-01-02]

Affiliated researcher

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SMLocalizer, a GPU accelerated ImageJ plugin for single molecule localization microscopy.

Bernhem K, Brismar H

Bioinformatics 34 (1) 137-138 [2018-01-01; online 2017-10-03]

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Environmental factors influencing the development and spread of antibiotic resistance.

Bengtsson-Palme J, Kristiansson E, Larsson DGJ

FEMS Microbiol Rev 42 (1) - [2018-01-01; online 2017-10-27]

DDLS Fellow Johan Bengtsson-Palme

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Enhancer transcription: what, where, when, and why?

Tippens ND, Vihervaara A, Lis JT

Genes Dev. 32 (1) 1-3 [2018-01-01; online 2018-02-15]

Anniina Vihervaara SciLifeLab Fellow

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Elevated Proportions of Deleterious Genetic Variation in Domestic Animals and Plants.

Makino T, Rubin CJ, Carneiro M, ..., Andersson L, Webster MT

Genome Biol Evol 10 (1) 276-290 [2018-01-01; online 2018-01-13]

Affiliated researcher

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Cytokine Autoantibody Screening in the Swedish Addison Registry Identifies Patients With Undiagnosed APS1.

Eriksson D, Dalin F, Eriksson GN, ..., Bensing S, Kämpe O

J. Clin. Endocrinol. Metab. 103 (1) 179-186 [2018-01-01; online 2017-10-27]

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Computational pan-genomics: status, promises and challenges.

Computational Pan-Genomics Consortium

Brief. Bioinformatics 19 (1) 118-135 [2018-01-01; online 2016-10-23]

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Vitamin D downregulates the IL-23 receptor pathway in human mucosal group 3 innate lymphoid cells.

Konya V, Czarnewski P, Forkel M, ..., Bergman P, Mjösberg J

J. Allergy Clin. Immunol. 141 (1) 279-292 [2018-01-00; online 2017-04-20]

Affiliated researcher

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Transcriptomics and Targeted Proteomics Analysis to Gain Insights Into the Immune-control Mechanisms of HIV-1 Infected Elite Controllers.

Zhang W, Ambikan AT, Sperk M, ..., Sönnerborg A, Neogi U

EBioMedicine 27 (-) 40-50 [2018-01-00; online 2017-12-12]

Affiliated researcher

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Thermodynamic analysis of computed pathways integrated into the metabolic networks of E. coli and Synechocystis reveals contrasting expansion potential.

Asplund-Samuelsson J, Janasch M, Hudson EP

Metab. Eng. 45 (-) 223-236 [2018-01-00; online 2017-12-24]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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The human protein atlas: A spatial map of the human proteome.

Thul PJ, Lindskog C

Protein Sci. 27 (1) 233-244 [2018-01-00; online 2017-10-10]

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The evolutionary fate of heterogeneous gene duplications: A precarious overdominant equilibrium between environment, sublethality and complementation.

Milesi P, Assogba BS, Atyame CM, ..., Weill M, Labbé P

Mol. Ecol. 27 (2) 493-507 [2018-01-00; online 2017-12-29]

Affiliated researcher Pascal Milesi SciLifeLab Fellow

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The environmental neurotoxin β-N-methylamino-l-alanine (l-BMAA) is deposited into birds' eggs.

Andersson M, Karlsson O, Brandt I

Ecotoxicology and Environmental Safety 147 (-) 720-724 [2018-01-00; online 2017-09-20]

Oskar Karlsson SciLifeLab Fellow

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The association between p,p'-DDE levels and left ventricular mass is mainly mediated by obesity.

La Merrill MA, Lind PM, Salihovic S, van Bavel B, Lind L

Environ. Res. 160 (-) 541-546 [2018-01-00; online 2017-10-26]

Affiliated researcher

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The SubCons webserver: A user friendly web interface for state-of-the-art subcellular localization prediction.

Salvatore M, Shu N, Elofsson A

Protein Sci. 27 (1) 195-201 [2018-01-00; online 2017-10-24]

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Single cell genomics of uncultured marine alveolates shows paraphyly of basal dinoflagellates.

Strassert JFH, Karnkowska A, Hehenberger E, ..., Santoro AE, Keeling PJ

ISME J 12 (1) 304-308 [2018-01-00; online 2017-10-10]

Affiliated researcher Fabien Burki SciLifeLab Fellow

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Reproducible diagnosis of chronic lymphocytic leukemia by flow cytometry: An European Research Initiative on CLL (ERIC) & European Society for Clinical Cell Analysis (ESCCA) Harmonisation project.

Rawstron AC, Kreuzer KA, Soosapilla A, ..., Ghia P, Montserrat E

Cytometry B Clin Cytom 94 (1) 121-128 [2018-01-00; online 2018-01-17]

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Protein-altering variants associated with body mass index implicate pathways that control energy intake and expenditure in obesity.

Turcot V, Lu Y, Highland HM, ..., MAGIC Investigators , Understanding Society Scientific Group

Nat. Genet. 50 (1) 26-41 [2018-01-00; online 2017-12-22]

Affiliated researcher

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Population genomics of Mesolithic Scandinavia: Investigating early postglacial migration routes and high-latitude adaptation.

Günther T, Malmström H, Svensson EM, ..., Götherström A, Jakobsson M

PLoS Biol. 16 (1) e2003703 [2018-01-00; online 2018-01-09]

Affiliated researcher

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Personality as an intermediate phenotype for genetic dissection of alcohol use disorder.

Oreland L, Lagravinese G, Toffoletto S, ..., Robert Cloninger C, Comasco E

J Neural Transm (Vienna) 125 (1) 107-130 [2018-01-00; online 2017-01-04]

Erika Comasco SciLifeLab Fellow

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Pancreatic imaging using an antibody fragment targeting the zinc transporter type 8: a direct comparison with radio-iodinated Exendin-4.

Eriksson O, Korsgren O, Selvaraju RK, ..., Chimienti F, Altai M

Acta diabetologica 55 (1) 49-57 [2018-01-00; online 2017-10-24]

Olof Eriksson SciLifeLab Fellow

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Neurological and neuropsychological effects of low and moderate prenatal alcohol exposure.

Comasco E, Rangmar J, Eriksson UJ, Oreland L

Acta Physiol 222 (1) e12892 [2018-01-00; online 2017-05-30]

Erika Comasco SciLifeLab Fellow

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MicroRNA expression profiles in non‑epithelial ovarian tumors.

Chang RK, Li X, Mu N, ..., Larsson C, Lui WO

Int. J. Oncol. 52 (1) 55-66 [2018-01-00; online 2017-11-10]

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Linking T cell epitopes to a common linear B cell epitope: A targeting and adjuvant strategy to improve T cell responses.

Mangsbo SM, Fletcher EAK, van Maren WWC, ..., Ossendorp F, Drijfhout JW

Mol. Immunol. 93 (-) 115-124 [2018-01-00; online 2017-11-22]

Affiliated researcher

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Letter: dose-response analysis revealed closer relationship between obesity and perioperative outcomes in patients after liver transplantation.

Liu Z, Mardinoglu A, Que S

Aliment. Pharmacol. Ther. 47 (2) 310-312 [2018-01-00; online 2017-12-22]

Adil Mardinoglu SciLifeLab Fellow

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Involvement of platelet-derived growth factor ligands and receptors in tumorigenesis.

Heldin CH, Lennartsson J, Westermark B

J. Intern. Med. 283 (1) 16-44 [2018-01-00; online 2017-10-17]

Affiliated researcher

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Homozygosity for a missense variant in COMP gene associated with severe pseudoachondroplasia.

Tariq M, Khan TN, Lundin L, ..., Dahl N, Klar J

Clin. Genet. 93 (1) 182-186 [2018-01-00; online 2017-11-21]

Affiliated researcher

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Heterologous transporter expression for improved fatty alcohol secretion in yeast.

Hu Y, Zhu Z, Nielsen J, Siewers V

Metab. Eng. 45 (-) 51-58 [2018-01-00; online 2017-11-26]

Affiliated researcher

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Genomic consequences of intensive inbreeding in an isolated wolf population.

Kardos M, Åkesson M, Fountain T, ..., Wikenros C, Ellegren H

Nat Ecol Evol 2 (1) 124-131 [2018-01-00; online 2017-11-20]

Affiliated researcher

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Extracorporeal human whole blood in motion, as a tool to predict first-infusion reactions and mechanism-of-action of immunotherapeutics.

Fletcher EAK, Eltahir M, Lindqvist F, ..., Leja-Jarblad J, Mangsbo SM

Int. Immunopharmacol. 54 (-) 1-11 [2018-01-00; online 2017-10-27]

Affiliated researcher

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Exome sequencing reveals NAA15 and PUF60 as candidate genes associated with intellectual disability.

Zhao JJ, Halvardson J, Zander CS, ..., Thuresson AC, Feuk L

Am. J. Med. Genet. B Neuropsychiatr. Genet. 177 (1) 10-20 [2018-01-00; online 2017-10-09]

Affiliated researcher

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Evolution and postglacial colonization of Seewis hantavirus with Sorex araneus in Finland.

Ling J, Smura T, Tamarit D, ..., Vapalahti O, Sironen T

Infect. Genet. Evol. 57 (-) 88-97 [2018-01-00; online 2017-11-10]

Affiliated researcher

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Elevated Plasma Levels of 3-Hydroxyisobutyric Acid Are Associated With Incident Type 2 Diabetes.

Mardinoglu A, Gogg S, Lotta LA, ..., Laakso M, Smith U

EBioMedicine 27 (-) 151-155 [2018-01-00; online 2017-12-07]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Diversion of the long-chain acyl-ACP pool in Synechocystis to fatty alcohols through CRISPRi repression of the essential phosphate acyltransferase PlsX.

Kaczmarzyk D, Cengic I, Yao L, Hudson EP

Metab. Eng. 45 (-) 59-66 [2018-01-00; online 2017-12-02]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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Divergence of a Tandem Duplication of Manganese Superoxide Dismutase in Nosema bombycis.

Wang Y, Zhang R, Barandun J, ..., Vossbrinck CR, Xiang H

J. Eukaryot. Microbiol. 65 (1) 93-103 [2018-01-00; online 2017-08-07]

Jonas Barandun SciLifeLab Fellow

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Clofazimine protects against Mycobacterium tuberculosis dissemination in the central nervous system following aerosol challenge in a murine model.

Baijnath S, Moodley C, Ngcobo B, ..., Pym A, Govender T

Int. J. Antimicrob. Agents 51 (1) 77-81 [2018-01-00; online 2017-08-24]

Affiliated researcher

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Circulating proteins as predictors of incident heart failure in the elderly.

Stenemo M, Nowak C, Byberg L, ..., Fall T, Ärnlöv J

Eur. J. Heart Fail. 20 (1) 55-62 [2018-01-00; online 2017-10-02]

Affiliated researcher

DOI Crossref

Can branding and price of pharmaceuticals guide informed choices towards improved pollution control during manufacturing?

Bengtsson-Palme J, Gunnarsson L, Larsson DGJ

Journal of Cleaner Production 171 (-) 137-146 [2018-01-00; online 2018-01-00]

DDLS Fellow Johan Bengtsson-Palme

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Asparaginase-like protein 1 is an independent prognostic marker in primary endometrial cancer, and is frequently lost in metastatic lesions.

Fonnes T, Berg HF, Bredholt T, ..., Tangen IL, Krakstad C

Gynecol. Oncol. 148 (1) 197-203 [2018-01-00; online 2017-10-31]

Affiliated researcher

DOI Crossref

Strategies for Taxonomic and Functional Annotation of Metagenomes

Bengtsson-Palme J

Metagenomics: Perspectives, Methods, and Applications - (-) 55-79 [2018-00-00; online 2018-00-00]

DDLS Fellow Johan Bengtsson-Palme

DOI Crossref

Measuring genome-wide genetic variation to reassess subspecies classifications in Dodonaea viscosa (Sapindaceae)

Christmas MJ, Biffin E, Lowe AJ

Aust. J. Bot. 66 (4) 287 [2018-00-00; online 2018-00-00]

Affiliated researcher

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Generation of Stable Amber Suppression Cell Lines

Elsässer SJ

Methods in molecular biology (Clifton, N.J.) 1728 (-) 237-245 [2018-00-00; online 2018-02-06]

SciLifeLab Fellow Simon Elsässer

DOI Crossref

An unexpected re-arrangement of the antibiotic carbapenem core to new 1,4-diazepin-5-one scaffolds

Peters BK, Razuwika R, Samipillai M, ..., Govender T, Naicker T

RSC Adv. 8 (1) 190-193 [2018-00-00; online 2018-00-00]

Affiliated researcher

PubMed DOI Crossref

Serum apolipoprotein A1 and haptoglobin, in patients with suspected drug-induced liver injury (DILI) as biomarkers of recovery.

Peta V, Tse C, Perazzo H, ..., Drug Induced Liver Injury- Groupe Hospitalier Pitié-Salpêtrière , Drug Induced Liver Group of the Injury Safer and Faster Evidence-based Translation consortium

PLoS ONE 12 (12) e0189436 [2017-12-29; online 2017-12-29]

Affiliated researcher

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Systematic exploration of multiple drug binding sites.

Bálint M, Jeszenői N, Horváth I, van der Spoel D, Hetényi C

J Cheminform 9 (1) 65 [2017-12-28; online 2017-12-28]

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Normal values for calprotectin in stool samples of infants from the population-based longitudinal born into life study.

Peura S, Fall T, Almqvist C, ..., Helmersson-Karlqvist J, Larsson A

Scandinavian Journal of Clinical and Laboratory Investigation 78 (1-2) 120-124 [2017-12-28; online 2017-12-28]

Affiliated researcher Sari Peura SciLifeLab Fellow

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Vascularization and odontode structure of a dorsal ridge spine of Romundina stellina Ørvig 1975.

Jerve A, Qu Q, Sanchez S, Ahlberg PE, Haitina T

PLoS ONE 12 (12) e0189833 [2017-12-27; online 2017-12-27]

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Metabolic Models of Protein Allocation Call for the Kinetome.

Nilsson A, Nielsen J, Palsson BO

Cell Systems 5 (6) 538-541 [2017-12-27; online 2017-12-29]

Avlant Nilsson DDLS Fellow

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Cancer vaccine based on a combination of an infection-enhanced adenoviral vector and pro-inflammatory allogeneic DCs leads to sustained antigen-specific immune responses in three melanoma models.

Fotaki G, Jin C, Kerzeli IK, ..., Yu D, Essand M

Oncoimmunology 7 (3) e1397250 [2017-12-26; online 2017-12-26]

Affiliated researcher

DOI Crossref

Fluidic trapping and optical detection of microparticles with a functional optical fiber

Etcheverry S, Russom A, Laurell F, Margulis W

Opt Express 25 (26) 33657 [2017-12-25; online 2017-12-22]

Affiliated researcher

PubMed DOI Crossref

The Next Step Forward in Ubiquitin-Specific Protease 7 Selective Inhibition.

Desroses M, Altun M

Cell Chem Biol 24 (12) 1429-1431 [2017-12-21; online 2017-12-23]

Affiliated researcher

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A common missense variant of LILRB5 is associated with statin intolerance and myalgia.

K Siddiqui M, Maroteau C, Veluchamy A, ..., Palmer CNA, PREDICTION-ADR Consortium

Eur. Heart J. 38 (48) 3569-3575 [2017-12-21; online 2017-10-12]

Affiliated researcher

PubMed DOI Crossref

Novel Trimodal MALDI Imaging Mass Spectrometry (IMS3) at 10 μm Reveals Spatial Lipid and Peptide Correlates Implicated in Aβ Plaque Pathology in Alzheimer's Disease.

Kaya I, Brinet D, Michno W, ..., Blenow K, Hanrieder J

ACS Chem Neurosci 8 (12) 2778-2790 [2017-12-20; online 2017-10-04]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Membrane vesiculation induced by proteins of the dengue virus envelope studied by molecular dynamics simulations.

de Oliveira Dos Santos Soares R, Bortot LO, van der Spoel D, Caliri A

J Phys Condens Matter 29 (50) 504002 [2017-12-20; online 2017-11-11]

Affiliated researcher

PubMed DOI Crossref

Sequence data and association statistics from 12,940 type 2 diabetes cases and controls.

Flannick J, Fuchsberger C, Mahajan A, ..., Boehnke M, McCarthy MI

Sci Data 4 (-) 170179 [2017-12-19; online 2017-12-19]

Affiliated researcher

PubMed DOI Crossref

Common founder effects of hereditary hemochromatosis, Wilson´s disease, the long QT syndrome and autosomal recessive deafness caused by two novel mutations in the

Olsson KS, Wålinder O, Jansson U, ..., Raha-Chowdhury R, Williams R

Hereditas 154 (-) 16 [2017-12-19; online 2017-12-19]

Affiliated researcher

PubMed DOI Crossref

On-chip conductometric detection of short DNA sequences via electro-hydrodynamic aggregation.

Venzac B, Diakité ML, Herthnek D, ..., Malaquin L, Viovy JL

Analyst 143 (1) 190-199 [2017-12-18; online 2017-11-25]

Affiliated researcher

PubMed DOI Crossref

Crystal structures of H-2Db in complex with the LCMV-derived peptides GP92 and GP392 explain pleiotropic effects of glycosylation on antigen presentation and immunogenicity.

Hafstrand I, Badia-Martinez D, Josey BJ, ..., Sandalova T, Achour A

PLoS ONE 12 (12) e0189584 [2017-12-18; online 2017-12-18]

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PubMed DOI Crossref

A chemical screen identifies trifluoperazine as an inhibitor of glioblastoma growth.

Pinheiro T, Otrocka M, Seashore-Ludlow B, ..., Simon A, Kirkham M

Biochem. Biophys. Res. Commun. 494 (3-4) 477-483 [2017-12-16; online 2017-10-21]

Affiliated researcher

PubMed DOI Crossref

Insertion of the Type-I IFN Decoy Receptor B18R in a miRNA-Tagged Semliki Forest Virus Improves Oncolytic Capacity but Results in Neurotoxicity.

Sarén T, Ramachandran M, Martikainen M, Yu D

Mol Ther Oncolytics 7 (-) 67-75 [2017-12-15; online 2017-10-05]

Affiliated researcher

PubMed DOI Crossref

HiDi: an efficient reverse engineering schema for large-scale dynamic regulatory network reconstruction using adaptive differentiation.

Deng Y, Zenil H, Tegnér J, Kiani NA

Bioinformatics 33 (24) 3964-3972 [2017-12-15; online 2017-09-30]

Affiliated researcher

PubMed DOI Crossref

Detection of phasic dopamine by D1 and D2 striatal medium spiny neurons.

Yapo C, Nair AG, Clement L, ..., Hellgren Kotaleski J, Vincent P

J. Physiol. (Lond.) 595 (24) 7451-7475 [2017-12-15; online 2017-09-02]

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PubMed DOI Crossref

Alcohol-abuse drug disulfiram targets cancer via p97 segregase adaptor NPL4.

Skrott Z, Mistrik M, Andersen KK, ..., Deshaies RJ, Bartek J

Nature 552 (7684) 194-199 [2017-12-14; online 2017-12-06]

Affiliated researcher

PubMed DOI Crossref

Diagnostic Assessment of Deep Learning Algorithms for Detection of Lymph Node Metastases in Women With Breast Cancer.

Ehteshami Bejnordi B, Veta M, Johannes van Diest P, ..., Racoceanu D, Venâncio R

JAMA 318 (22) 2199-2210 [2017-12-12; online 2017-12-14]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Bri2 BRICHOS client specificity and chaperone activity are governed by assembly state.

Chen G, Abelein A, Nilsson HE, ..., Fisahn A, Johansson J

Nat Commun 8 (1) 2081 [2017-12-12; online 2017-12-12]

Affiliated researcher

PubMed DOI Crossref

The relation between Blastocystis and the intestinal microbiota in Swedish travellers.

Forsell J, Bengtsson-Palme J, Angelin M, ..., Evengård B, Granlund M

BMC Microbiol. 17 (1) 231 [2017-12-11; online 2017-12-11]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Comparative cell cycle transcriptomics reveals synchronization of developmental transcription factor networks in cancer cells.

Boström J, Sramkova Z, Salašová A, ..., Altun M, Andäng M

PLoS ONE 12 (12) e0188772 [2017-12-11; online 2017-12-11]

Affiliated researcher

PubMed DOI Crossref

Characterization of interactions between hepatitis C virus NS5B polymerase, annexin A2 and RNA - effects on NS5B catalysis and allosteric inhibition.

Solbak SMØ, Abdurakhmanov E, Vedeler A, Danielson UH

Virol. J. 14 (1) 236 [2017-12-11; online 2017-12-11]

Affiliated researcher

PubMed DOI Crossref

Perturbation of RNA Polymerase I transcription machinery by ablation of HEATR1 triggers the RPL5/RPL11-MDM2-p53 ribosome biogenesis stress checkpoint pathway in human cells.

Turi Z, Senkyrikova M, Mistrik M, Bartek J, Moudry P

Cell Cycle 17 (1) 92-101 [2017-12-10; online 2017-12-10]

Affiliated researcher

PubMed DOI Crossref

6S RNA plays a role in recovery from nitrogen depletion in Synechocystis sp. PCC 6803.

Heilmann B, Hakkila K, Georg J, ..., Axmann IM, Dienst D

BMC Microbiol. 17 (1) 229 [2017-12-08; online 2017-12-08]

Affiliated researcher

PubMed DOI Crossref

The role of Cdx2 as a lineage specific transcriptional repressor for pluripotent network during the first developmental cell lineage segregation.

Huang D, Guo G, Yuan P, ..., Robson P, Han X

Sci Rep 7 (1) 17156 [2017-12-07; online 2017-12-07]

Affiliated researcher

PubMed DOI Crossref

Mechanistic Insights into Autoinhibition of the Oncogenic Chromatin Remodeler ALC1.

Lehmann LC, Hewitt G, Aibara S, ..., Boulton SJ, Deindl S

Mol. Cell 68 (5) 847-859.e7 [2017-12-07; online 2017-12-09]

Affiliated researcher Emil Marklund SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Genomic and phenotypic characteristics of Swedish C. jejuni water isolates.

Nilsson A, Johansson C, Skarp A, ..., Engstrand L, Rautelin H

PLoS ONE 12 (12) e0189222 [2017-12-07; online 2017-12-07]

Affiliated researcher

PubMed DOI Crossref

A Unique ISR Program Determines Cellular Responses to Chronic Stress.

Guan BJ, van Hoef V, Jobava R, ..., Larsson O, Hatzoglou M

Mol. Cell 68 (5) 885-900.e6 [2017-12-07; online 2017-12-09]

Affiliated researcher

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Purg M, Elias M, Kamerlin SCL

J. Am. Chem. Soc. 139 (48) 17533-17546 [2017-12-06; online 2017-11-21]

Affiliated researcher

PubMed DOI Crossref

Homozygous GRID2 missense mutation predicts a shift in the D-serine binding domain of GluD2 in a case with generalized brain atrophy and unusual clinical features.

Ali Z, Zulfiqar S, Klar J, ..., Baig S, Dahl N

BMC Med. Genet. 18 (1) 144 [2017-12-06; online 2017-12-06]

Affiliated researcher

PubMed DOI Crossref

The Intriguing Evolutionary Journey of Enteroinvasive

Pasqua M, Michelacci V, Di Martino ML, ..., Morabito S, Prosseda G

Front Microbiol 8 (-) 2390 [2017-12-05; online 2017-12-05]

Affiliated researcher

PubMed DOI Crossref

The Human Cell Atlas.

Regev A, Teichmann SA, Lander ES, ..., Yosef N, Human Cell Atlas Meeting Participants

Elife 6 (-) - [2017-12-05; online 2017-12-05]

Affiliated researcher

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Protonation-Initiated Cyclization by a Class II Terpene Cyclase Assisted by Tunneling.

Eriksson A, Kürten C, Syrén PO

Chembiochem 18 (23) 2301-2305 [2017-12-05; online 2017-11-03]

Affiliated researcher

PubMed DOI Crossref

Transport and release of colloidal 3-mercaptopropionic acid-coated CdSe-CdS/ZnS core-multishell quantum dots in human umbilical vein endothelial cells.

Fontana JM, Yin H, Chen Y, ..., Brismar H, Fu Y

Int J Nanomedicine 12 (-) 8615-8629 [2017-12-04; online 2017-12-04]

Affiliated researcher

PubMed DOI Crossref

Quantitative Assessment of Drug Delivery to Tissues and Association with Phospholipidosis: A Case Study with Two Structurally Related Diamines in Development.

Loryan I, Hoppe E, Hansen K, ..., Will O, Hammarlund-Udenaes M

Mol. Pharm. 14 (12) 4362-4373 [2017-12-04; online 2017-11-03]

Affiliated researcher

PubMed DOI Crossref

Investigation of the Intra- and Interlaboratory Reproducibility of a Small Scale Standardized Supersaturation and Precipitation Method.

Plum J, Madsen CM, Teleki A, ..., Rades T, Müllertz A

Mol. Pharm. 14 (12) 4161-4169 [2017-12-04; online 2017-11-07]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

A New Lineage of Eukaryotes Illuminates Early Mitochondrial Genome Reduction.

Janouškovec J, Tikhonenkov DV, Burki F, ..., Mylnikov AP, Keeling PJ

Curr. Biol. 27 (23) 3717-3724.e5 [2017-12-04; online 2017-11-22]

Affiliated researcher Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Validating Missing Proteins in Human Sperm Cells by Targeted Mass-Spectrometry- and Antibody-based Methods.

Carapito C, Duek P, Macron C, ..., Lane L, Pineau C

J. Proteome Res. 16 (12) 4340-4351 [2017-12-01; online 2017-09-26]

Affiliated researcher

PubMed DOI Crossref

Palladium(0)-Catalyzed Carbonylative One-Pot Synthesis of N-Acylguanidines.

Åkerbladh L, Schembri LS, Larhed M, Odell LR

J. Org. Chem. 82 (23) 12520-12529 [2017-12-01; online 2017-10-27]

Affiliated researcher

PubMed DOI Crossref

LTR Retrotransposons Show Low Levels of Unequal Recombination and High Rates of Intraelement Gene Conversion in Large Plant Genomes.

Cossu RM, Casola C, Giacomello S, ..., Scofield DG, Zuccolo A

Genome Biol Evol 9 (12) 3449-3462 [2017-12-01; online 2017-12-12]

Affiliated researcher

PubMed DOI Crossref

COMT genotype and non-recovery after a whiplash injury in a Northern European population.

Rydman E, Comasco E, Pettersson H, ..., Ponzer S, Ottosson C

BMC Musculoskelet Disord 18 (1) 507 [2017-12-01; online 2017-12-01]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Trends in GPCR drug discovery: new agents, targets and indications.

Hauser AS, Attwood MM, Rask-Andersen M, Schiöth HB, Gloriam DE

Nat Rev Drug Discov 16 (12) 829-842 [2017-12-00; online 2017-10-27]

Affiliated researcher

DOI Crossref

Surrogate assisted model reduction for stochastic biochemical reaction networks

Singh P, Hellander A

- - (-) - [2017-12-00; online 2017-12-00]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Scavenger Receptor A Mediates the Clearance and Immunological Screening of MDA-Modified Antigen by M2-Type Macrophages.

Warnecke A, Abele S, Musunuri S, Bergquist J, Harris RA

Neuromolecular Med. 19 (4) 463-479 [2017-12-00; online 2017-08-21]

Affiliated researcher

PubMed DOI Crossref

PLS3 Deletions Lead to Severe Spinal Osteoporosis and Disturbed Bone Matrix Mineralization.

Kämpe AJ, Costantini A, Levy-Shraga Y, ..., Grasemann C, Mäkitie O

J. Bone Miner. Res. 32 (12) 2394-2404 [2017-12-00; online 2017-09-06]

Affiliated researcher

DOI Crossref

Loss of Conservation of Graph Centralities in Reverse-engineered Transcriptional Regulatory Networks

Weishaupt H, Johansson P, Engström C, ..., Silvestrov S, Swartling FJ

Methodol Comput Appl Probab 19 (4) 1089-1105 [2017-12-00; online 2017-04-03]

Affiliated researcher

PubMed DOI Crossref

Lansoprazole-sulfide, pharmacokinetics of this promising anti-tuberculous agent.

Mdanda S, Baijnath S, Shobo A, ..., Naicker T, Govender T

Biomed. Chromatogr. 31 (12) - [2017-12-00; online 2017-07-13]

Affiliated researcher

PubMed DOI Crossref

Inflammatory infiltrates in parathyroid tumors.

Haglund F, Hallström BM, Nilsson IL, ..., Juhlin CC, Larsson C

Eur. J. Endocrinol. 177 (6) 445-453 [2017-12-00; online 2017-08-30]

Affiliated researcher

PubMed DOI Crossref

From transcriptional complexity to cellular phenotypes: Lessons from yeast.

Pelechano V

Yeast 34 (12) 475-482 [2017-12-00; online 2017-10-11]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Evolution of epigenetic chromatin states

Yung PYK, Elsässer SJ

Current Opinion in Chemical Biology 41 (-) 36-42 [2017-12-00; online 2017-12-00]

Affiliated researcher SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Evaluation of a Stenotrophomonas maltophilia bacteremia cluster in hematopoietic stem cell transplantation recipients using whole genome sequencing

Kampmeier S, Pillukat MH, Pettke A, ..., Idelevich EA, Mellmann A

Antimicrob Resist Infect Control 6 (1) - [2017-12-00; online 2017-11-13]

Affiliated researcher

PubMed DOI Crossref

East-West paths to unconventional computing.

Adamatzky A, Akl S, Burgin M, ..., Svozil K, Zenil H

Prog. Biophys. Mol. Biol. 131 (-) 469-493 [2017-12-00; online 2017-08-14]

Affiliated researcher

PubMed DOI Crossref

EPR Oximetry of Cetuximab-Treated Head-and-Neck Tumours in a Mouse Model.

Gustafsson H, Kale A, Dasu A, ..., Edqvist PH, Roberg K

Cell Biochem. Biophys. 75 (3-4) 299-309 [2017-12-00; online 2017-07-29]

Affiliated researcher

PubMed DOI Crossref

Cytotoxic T cells in chronic idiopathic neutropenia express restricted antigen receptors.

Mastrodemou S, Stalika E, Vardi A, ..., Papadaki HA, Stamatopoulos K

Leuk. Lymphoma 58 (12) 2926-2933 [2017-12-00; online 2017-05-23]

Affiliated researcher

DOI Crossref

Characterisation of in vitro gastrointestinal digests from low fat caprine kefir enriched with inulin

Simsek S, Sánchez-Rivera L, El SN, Karakaya S, Recio I

International Dairy Journal 75 (-) 68-74 [2017-12-00; online 2017-12-00]

Affiliated researcher

PubMed DOI Crossref

Cancer as an ecomolecular disease and a neoplastic consortium.

Ramón Y Cajal S, Capdevila C, Hernandez-Losa J, ..., Postovit LM, Topisirovic I

Biochim Biophys Acta Rev Cancer 1868 (2) 484-499 [2017-12-00; online 2017-09-23]

Affiliated researcher

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Biodiversity, drug discovery, and the future of global health: Introducing the biodiversity to biomedicine consortium, a call to action.

Neergheen-Bhujun V, Awan AT, Baran Y, ..., Pešić M, Kagansky A

Journal of global health 7 (2) 020304 [2017-12-00; online 2018-01-06]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

An essential regulatory function of the DnaK chaperone dictates the decision between proliferation and maintenance in Caulobacter crescentus.

Schramm FD, Heinrich K, Thüring M, Bernhardt J, Jonas K

PLoS Genet 13 (12) e1007148 [2017-12-00; online 2017-12-27]

Affiliated researcher Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

A female Viking warrior confirmed by genomics.

Hedenstierna-Jonson C, Kjellström A, Zachrisson T, ..., Götherström A, Storå J

Am. J. Phys. Anthropol. 164 (4) 853-860 [2017-12-00; online 2017-09-08]

Affiliated researcher

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Maternal diabetes and incidence of childhood cancer - a nationwide cohort study and exploratory genetic analysis.

Deleskog A, den Hoed M, Tettamanti G, ..., Feychting M, Brooke HL

Clin Epidemiol 9 (-) 633-642 [2017-11-30; online 2017-11-30]

Affiliated researcher

PubMed DOI Crossref

A short feature vector for image matching: The Log-Polar Magnitude feature descriptor.

Matuszewski DJ, Hast A, Wählby C, Sintorn IM

PLoS ONE 12 (11) e0188496 [2017-11-30; online 2017-11-30]

Affiliated researcher

PubMed DOI Crossref

STRT-seq-2i: dual-index 5' single cell and nucleus RNA-seq on an addressable microwell array.

Hochgerner H, Lönnerberg P, Hodge R, ..., Zeisel A, Linnarsson S

Sci Rep 7 (1) 16327 [2017-11-27; online 2017-11-27]

Affiliated researcher

PubMed DOI Crossref

Pro-inflammatory allogeneic DCs promote activation of bystander immune cells and thereby license antigen-specific T-cell responses.

Fotaki G, Jin C, Ramachandran M, ..., Yu D, Essand M

Oncoimmunology 7 (3) e1395126 [2017-11-27; online 2017-11-27]

Affiliated researcher

PubMed DOI Crossref

Cohort-specific imputation of gene expression improves prediction of warfarin dose for African Americans.

Gottlieb A, Daneshjou R, DeGorter M, ..., Montgomery SB, Altman RB

Genome Med 9 (1) 98 [2017-11-24; online 2017-11-24]

Affiliated researcher

PubMed DOI Crossref

A convenient transesterification method for synthesis of AT2 receptor ligands with improved stability in human liver microsomes.

Wannberg J, Isaksson R, Bremberg U, ..., Hallberg M, Larhed M

Bioorg. Med. Chem. Lett. - (-) - [2017-11-24; online 2017-11-24]

Affiliated researcher

PubMed DOI Crossref

Mutational and putative neoantigen load predict clinical benefit of adoptive T cell therapy in melanoma.

Lauss M, Donia M, Harbst K, ..., Svane IM, Jönsson G

Nat Commun 8 (1) 1738 [2017-11-23; online 2017-11-23]

Affiliated researcher

PubMed DOI Crossref

Determinism and Contingency Shape Metabolic Complementation in an Endosymbiotic Consortium.

Ponce-de-Leon M, Tamarit D, Calle-Espinosa J, ..., Montero F, Pereto J

Front Microbiol 8 (-) 2290 [2017-11-22; online 2017-11-22]

Affiliated researcher

PubMed DOI Crossref

HDL particles incorporate into lipid bilayers - a combined AFM and single molecule fluorescence microscopy study.

Plochberger B, Röhrl C, Preiner J, ..., Stangl H, Schütz GJ

Sci Rep 7 (1) 15886 [2017-11-21; online 2017-11-21]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Dog ownership and the risk of cardiovascular disease and death - a nationwide cohort study.

Mubanga M, Byberg L, Nowak C, ..., Ingelsson E, Fall T

Sci Rep 7 (1) 15821 [2017-11-17; online 2017-11-17]

Affiliated researcher

PubMed DOI Crossref

A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family.

Carreras-Puigvert J, Zitnik M, Jemth AS, ..., Zupan B, Helleday T

Nat Commun 8 (1) 1541 [2017-11-16; online 2017-11-16]

Affiliated researcher

PubMed DOI Crossref

Interleukin-33 Promotes Recruitment of Microglia/Macrophages in Response to Traumatic Brain Injury.

Wicher G, Wallenquist U, Lei Y, ..., Nilsson G, Forsberg-Nilsson K

J. Neurotrauma 34 (22) 3173-3182 [2017-11-15; online 2017-07-21]

Affiliated researcher

PubMed DOI Crossref

Impact of N-methylation of the substance P 1-7 amide on anti-allodynic effect in mice after peripheral administration.

Skogh A, Lesniak A, Gaugaz FZ, ..., Hallberg M, Sandström A

Eur J Pharm Sci 109 (-) 533-540 [2017-11-15; online 2017-09-05]

Affiliated researcher

PubMed DOI Crossref

An exome sequencing based approach for genome-wide association studies in the dog.

Broeckx BJG, Derrien T, Mottier S, ..., Peelman L, Hitte C

Sci Rep 7 (1) 15680 [2017-11-15; online 2017-11-15]

Affiliated researcher

PubMed DOI Crossref

Systems pathology by multiplexed immunohistochemistry and whole-slide digital image analysis.

Blom S, Paavolainen L, Bychkov D, ..., Kallioniemi O, Pellinen T

Sci Rep 7 (1) 15580 [2017-11-14; online 2017-11-14]

Affiliated researcher

PubMed DOI Crossref

Human cytomegalovirus and Herpes Simplex type I virus can engage RNA polymerase I for transcription of immediate early genes.

Kostopoulou ON, Wilhelmi V, Raiss S, ..., Bartek J, Söderberg-Naucler C

Oncotarget 8 (57) 96536-96552 [2017-11-14; online 2017-10-29]

Affiliated researcher

PubMed DOI Crossref

Female mice lacking Pald1 exhibit endothelial cell apoptosis and emphysema.

Egaña I, Kaito H, Nitzsche A, ..., Hellström M, German Mouse Clinic Consortium

Sci Rep 7 (1) 15453 [2017-11-13; online 2017-11-13]

Affiliated researcher

PubMed DOI Crossref

Antibody Heavy Chain Variable Domains of Different Germline Gene Origins Diversify through Different Paths.

Kirik U, Persson H, Levander F, Greiff L, Ohlin M

Front Immunol 8 (-) 1433 [2017-11-13; online 2017-11-13]

Affiliated researcher

PubMed DOI Crossref

The emergence of piRNAs against transposon invasion to preserve mammalian genome integrity.

Ernst C, Odom DT, Kutter C

Nat Commun 8 (1) 1411 [2017-11-10; online 2017-11-10]

Affiliated researcher Claudia Kutter SciLifeLab Fellow

DOI Crossref

Automatic Document Image Binarization using Bayesian Optimization

Vats E, Hast A, Singh P

- - (-) - [2017-11-10; online 2017-11-10]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Archaea and the origin of eukaryotes.

Eme L, Spang A, Lombard J, Stairs CW, Ettema TJG

Nat. Rev. Microbiol. 15 (12) 711-723 [2017-11-10; online 2017-11-11]

Affiliated researcher

PubMed DOI Crossref

Cholesterol Promotes Protein Binding by Affecting Membrane Electrostatics and Solvation Properties.

Doktorova M, Heberle FA, Kingston RL, ..., Vogt VM, Dick RA

Biophys. J. 113 (9) 2004-2015 [2017-11-07; online 2017-11-09]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Southern African ancient genomes estimate modern human divergence to 350,000 to 260,000 years ago.

Schlebusch CM, Malmström H, Günther T, ..., Lombard M, Jakobsson M

Science 358 (6363) 652-655 [2017-11-03; online 2017-09-28]

Affiliated researcher

PubMed DOI Crossref

Extending the Nonbonded Cationic Dummy Model to Account for Ion-Induced Dipole Interactions.

Liao Q, Pabis A, Strodel B, Kamerlin SCL

J Phys Chem Lett 8 (21) 5408-5414 [2017-11-02; online 2017-10-23]

Affiliated researcher

PubMed DOI Crossref

Influence of surface states on blinking characteristics of single colloidal CdSe-CdS/ZnS core-multishell quantum dot.

Xu H, Brismar H, Fu Y

J Colloid Interface Sci 505 (-) 528-536 [2017-11-01; online 2017-06-16]

Affiliated researcher

PubMed DOI Crossref

Cryo-EM reconstruction of the chlororibosome to 3.2 Å resolution within 24 h.

Forsberg BO, Aibara S, Kimanius D, ..., Lindahl E, Amunts A

IUCrJ 4 (Pt 6) 723-727 [2017-11-01; online 2017-09-22]

Affiliated researcher Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Choline transporter mutations in severe congenital myasthenic syndrome disrupt transporter localization.

Wang H, Salter CG, Refai O, ..., Cirak S, Crosby AH

Brain 140 (11) 2838-2850 [2017-11-01; online 2017-11-01]

Affiliated researcher

PubMed DOI Crossref

The role of the skin microbiome in atopic dermatitis: a systematic review.

Bjerre RD, Bandier J, Skov L, Engstrand L, Johansen JD

Br. J. Dermatol. 177 (5) 1272-1278 [2017-11-00; online 2017-11-12]

Affiliated researcher

PubMed DOI Crossref

The effect of drinking water contaminated with perfluoroalkyl substances on a 10-year longitudinal trend of plasma levels in an elderly Uppsala cohort.

Stubleski J, Salihovic S, Lind PM, ..., van Bavel B, Kärrman A

Environ. Res. 159 (-) 95-102 [2017-11-00; online 2017-08-03]

Affiliated researcher

PubMed DOI Crossref

The complete structure of the small-subunit processome.

Barandun J, Chaker-Margot M, Hunziker M, ..., Chait BT, Klinge S

Nat. Struct. Mol. Biol. 24 (11) 944-953 [2017-11-00; online 2017-09-25]

Jonas Barandun SciLifeLab Fellow

PubMed DOI Crossref

The acute effects of ultraviolet radiation on the blood transcriptome are independent of plasma 25OHD3.

Bustamante M, Hernandez-Ferrer C, Sarria Y, ..., Nieuwenhuijsen M, Young AR

Environ. Res. 159 (-) 239-248 [2017-11-00; online 2017-09-18]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Temporal characterization of the non-structural Adenovirus type 2 proteome and phosphoproteome using high-resolving mass spectrometry.

Källsten M, Gromova A, Zhao H, ..., Pettersson U, Lind SB

Virology 511 (-) 240-248 [2017-11-00; online 2017-09-12]

Affiliated researcher

PubMed DOI Crossref

SweGen: a whole-genome data resource of genetic variability in a cross-section of the Swedish population.

Ameur A, Dahlberg J, Olason P, ..., Magnusson PK, Gyllensten U

Eur. J. Hum. Genet. 25 (11) 1253-1260 [2017-11-00; online 2017-08-23]

Affiliated researcher

PubMed DOI Crossref

Species differences in pancreatic binding of DO3A-VS-Cys 40-Exendin4.

Eriksson O, Rosenström U, Selvaraju RK, Eriksson B, Velikyan I

Acta diabetologica 54 (11) 1039-1045 [2017-11-00; online 2017-09-11]

Olof Eriksson SciLifeLab Fellow

DOI Crossref

Precision food safety: A systems approach to food safety facilitated by genomics tools

Kovac J, Bakker Hd, Carroll LM, Wiedmann M

TrAC Trends in Analytical Chemistry 96 (-) 52-61 [2017-11-00; online 2017-11-00]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Photoluminescence of Diphenylalanine Peptide Nano/Microstructures: From Mechanisms to Applications.

Gan Z, Xu H

Macromol Rapid Commun 38 (22) - [2017-11-00; online 2017-09-13]

Affiliated researcher

PubMed DOI Crossref

Ninety-nine de novo assembled genomes from the moose (Alces alces) rumen microbiome provide new insights into microbial plant biomass degradation.

Svartström O, Alneberg J, Terrapon N, ..., Aspeborg H, Andersson AF

ISME J 11 (11) 2538-2551 [2017-11-00; online 2017-07-21]

Affiliated researcher

PubMed DOI Crossref

Medulloblastoma: experimental models and reality.

Neumann JE, Swartling FJ, Schüller U

Acta Neuropathol. 134 (5) 679-689 [2017-11-00; online 2017-07-19]

Affiliated researcher

PubMed DOI Crossref

Identification of a novel proinsulin-associated SNP and demonstration that proinsulin is unlikely to be a causal factor in subclinical vascular remodelling using Mendelian randomisation.

Strawbridge RJ, Silveira A, Hoed MD, ..., Hamsten A, IMPROVE study group

Atherosclerosis 266 (-) 196-204 [2017-11-00; online 2017-09-28]

Affiliated researcher

PubMed DOI Crossref

Genotype-based recall to study metabolic effects of genetic variation: a pilot study of PPARG Pro12Ala carriers.

Kamble PG, Gustafsson S, Pereira MJ, ..., Eriksson JW, Ingelsson E

Ups. J. Med. Sci. 122 (4) 234-242 [2017-11-00; online 2018-01-05]

Affiliated researcher

PubMed DOI Crossref

Genetic landscape and deregulated pathways in B-cell lymphoid malignancies.

Rosenquist R, Beà S, Du MQ, Nadel B, Pan-Hammarström Q

J. Intern. Med. 282 (5) 371-394 [2017-11-00; online 2017-06-20]

Affiliated researcher

PubMed DOI Crossref

Enabling the synthesis of medium chain alkanes and 1-alkenes in yeast.

Zhu Z, Zhou YJ, Kang MK, ..., Buijs NA, Nielsen J

Metab. Eng. 44 (-) 81-88 [2017-11-00; online 2017-09-20]

Affiliated researcher

PubMed DOI Crossref

Early stages in the ontogeny of small B-cell lymphomas: genetics and microenvironment.

Ghia P, Nadel B, Sander B, Stamatopoulos K, Stevenson FK

J. Intern. Med. 282 (5) 395-414 [2017-11-00; online 2017-04-10]

Affiliated researcher

DOI Crossref

Constrained multi-objective antenna design optimization using surrogates

Singh P, Rossi M, Couckuyt I, ..., Rogier H, Dhaene T

Int J Numer Model 30 (6) e2248 [2017-11-00; online 2017-05-04]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Comparison of

Opydo-Chanek M, Śladowska K, Blicharski K, ..., Niemeyer U, Mazur L

Anticancer Res. 37 (11) 6355-6361 [2017-11-00; online 2017-10-25]

Affiliated researcher

PubMed DOI Crossref

An Expanded Genome-Wide Association Study of Type 2 Diabetes in Europeans.

Scott RA, Scott LJ, Mägi R, ..., Prokopenko I, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium

Diabetes 66 (11) 2888-2902 [2017-11-00; online 2017-05-31]

Affiliated researcher

PubMed DOI Crossref

A novel approach using long-read sequencing and ddPCR to investigate gonadal mosaicism and estimate recurrence risk in two families with developmental disorders.

Wilbe M, Gudmundsson S, Johansson J, ..., Frykholm C, Bondeson ML

Prenat. Diagn. 37 (11) 1146-1154 [2017-11-00; online 2017-10-17]

Affiliated researcher

PubMed DOI Crossref

A nonsense mutation in CEP55 defines a new locus for a Meckel-like syndrome, an autosomal recessive lethal fetal ciliopathy.

Bondeson ML, Ericson K, Gudmundsson S, ..., Frykholm C, Wilbe M

Clin. Genet. 92 (5) 510-516 [2017-11-00; online 2017-05-03]

Affiliated researcher

PubMed DOI Crossref

Vitamin and Amino Acid Auxotrophy in Anaerobic Consortia Operating under Methanogenic Conditions.

Hubalek V, Buck M, Tan B, ..., Bertilsson S, Eiler A

mSystems 2 (5) - [2017-10-31; online 2017-10-31]

Affiliated researcher

PubMed DOI Crossref

In situ metabolomic- and transcriptomic-profiling of the host-associated cyanobacteria Prochloron and Acaryochloris marina.

Behrendt L, Raina JB, Lutz A, ..., Larkum AW, Kühl M

ISME J 12 (2) 556-567 [2017-10-31; online 2017-10-31]

Lars Behrendt SciLifeLab Fellow

DOI Crossref

Different historical backgrounds determine contrasting phylogeographical patterns in two co-distributed Erica species (Ericaceae) across the Strait of Gibraltar

Gil-López MJ, Segarra-Moragues JG, Désamoré A, Laenen B, Ojeda F

- 185 (3) 359-375 [2017-10-31; online 2017-10-31]

Affiliated researcher

PubMed DOI Crossref

Maintenance therapy with proton pump inhibitors and risk of gastric cancer: a nationwide population-based cohort study in Sweden.

Brusselaers N, Wahlin K, Engstrand L, Lagergren J

BMJ Open 7 (10) e017739 [2017-10-30; online 2017-10-30]

Affiliated researcher

PubMed DOI Crossref

Thiol-ene-epoxy thermoset for low-temperature bonding to biofunctionalized microarray surfaces.

Zhou XC, Sjöberg R, Druet A, ..., Haraldsson T, Carlborg CF

Lab Chip 17 (21) 3672-3681 [2017-10-25; online 2017-10-05]

Affiliated researcher

PubMed DOI Crossref

Sex influences eQTL effects of SLE and Sjögren's syndrome-associated genetic polymorphisms.

Lindén M, Ramírez Sepúlveda JI, James T, ..., Kockum I, Wahren-Herlenius M

Biol Sex Differ 8 (1) 34 [2017-10-25; online 2017-10-25]

Affiliated researcher

PubMed DOI Crossref

Efficient protein production by yeast requires global tuning of metabolism.

Huang M, Bao J, Hallström BM, Petranovic D, Nielsen J

Nat Commun 8 (1) 1131 [2017-10-25; online 2017-10-25]

Affiliated researcher

PubMed DOI Crossref

Studying Kv Channels Function using Computational Methods.

Deyawe A, Kasimova MA, Delemotte L, Loussouarn G, Tarek M

Methods in molecular biology (Clifton, N.J.) 1684 (-) 321-341 [2017-10-24; online 2017-10-24]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Functional reconstruction of a eukaryotic-like E1/E2/(RING) E3 ubiquitylation cascade from an uncultured archaeon.

Hennell James R, Caceres EF, Escasinas A, ..., Ettema TJG, Robinson NP

Nat Commun 8 (1) 1120 [2017-10-24; online 2017-10-24]

Affiliated researcher

PubMed DOI Crossref

Structure-Guided Screening for Functionally Selective D2 Dopamine Receptor Ligands from a Virtual Chemical Library.

Männel B, Jaiteh M, Zeifman A, ..., Gmeiner P, Carlsson J

ACS chemical biology 12 (10) 2652-2661 [2017-10-20; online 2017-09-19]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Proteomic analysis of cell cycle progression in asynchronous cultures, including mitotic subphases, using PRIMMUS.

Ly T, Whigham A, Clarke R, ..., Wadsworth P, Lamond AI

Elife 6 (-) - [2017-10-20; online 2017-10-20]

Affiliated researcher

PubMed DOI Crossref

Development of a Bacterial Biosensor for Rapid Screening of Yeast p-Coumaric Acid Production.

Siedler S, Khatri NK, Zsohár A, ..., Sommer MOA, Joensson HN

ACS Synth. Biol. 6 (10) 1860-1869 [2017-10-20; online 2017-06-21]

Affiliated researcher

PubMed DOI Crossref

KIT signaling is dispensable for human mast cell progenitor development.

Dahlin JS, Ekoff M, Grootens J, ..., Olsson-Strömberg U, Nilsson G

Blood 130 (16) 1785-1794 [2017-10-19; online 2017-08-08]

Affiliated researcher

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Genome-Wide Profiling of DNA Double-Strand Breaks by the BLESS and BLISS Methods.

Mirzazadeh R, Kallas T, Bienko M, Crosetto N

Methods in molecular biology (Clifton, N.J.) 1672 (-) 167-194 [2017-10-19; online 2017-10-19]

Magda Bienko SciLifeLab Fellow

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Integrating evolutionary and regulatory information with a multispecies approach implicates genes and pathways in obsessive-compulsive disorder.

Noh HJ, Tang R, Flannick J, ..., Karlsson EK, Lindblad-Toh K

Nat Commun 8 (1) 774 [2017-10-17; online 2017-10-17]

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In situ genotyping of a pooled strain library after characterizing complex phenotypes.

Lawson MJ, Camsund D, Larsson J, ..., Fange D, Elf J

Mol Syst Biol 13 (10) 947 [2017-10-17; online 2017-10-17]

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Glioblastoma and glioblastoma stem cells are dependent on functional MTH1.

Pudelko L, Rouhi P, Sanjiv K, ..., Helleday T, Bräutigam L

Oncotarget 8 (49) 84671-84684 [2017-10-17; online 2017-07-20]

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Proteome analysis of bronchoalveolar lavage from calves infected with bovine respiratory syncytial virus-Insights in pathogenesis and perspectives for new treatments.

Hägglund S, Blodörn K, Näslund K, ..., Pringle J, Valarcher JF

PLoS ONE 12 (10) e0186594 [2017-10-16; online 2017-10-16]

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Controlling adsorption of albumin with hyaluronan on silica surfaces and sulfonated latex particles.

Berts I, Fragneto G, Porcar L, Hellsing MS, Rennie AR

J Colloid Interface Sci 504 (-) 315-324 [2017-10-15; online 2017-05-17]

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Multiplexed ChIP-Seq Using Direct Nucleosome Barcoding: A Tool for High-Throughput Chromatin Analysis.

Chabbert CD, Adjalley SH, Steinmetz LM, Pelechano V

Methods in molecular biology (Clifton, N.J.) 1689 (-) 177-194 [2017-10-14; online 2017-10-14]

SciLifeLab Fellow Vicent Pelechano

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Signatures of positive selection reveal a universal role of chromatin modifiers as cancer driver genes.

Zapata L, Susak H, Drechsel O, ..., Estivill X, Ossowski S

Sci Rep 7 (1) 13124 [2017-10-13; online 2017-10-13]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

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Novel mutations in Darier disease and association to self-reported disease severity.

Leong IUS, Stuckey A, Ahanian T, Cederlöf M, Wikstrom JD

PLoS ONE 12 (10) e0186356 [2017-10-13; online 2017-10-13]

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Lubricin binds cartilage proteins, cartilage oligomeric matrix protein, fibronectin and collagen II at the cartilage surface.

Flowers SA, Zieba A, Örnros J, ..., Kamali-Moghaddam M, Karlsson NG

Sci Rep 7 (1) 13149 [2017-10-13; online 2017-10-13]

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Fidelity of RNA templated end-joining by chlorella virus DNA ligase and a novel iLock assay with improved direct RNA detection accuracy.

Krzywkowski T, Nilsson M

Nucleic Acids Res. 45 (18) e161 [2017-10-13; online 2017-10-20]

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Correlations in Scattered X-Ray Laser Pulses Reveal Nanoscale Structural Features of Viruses.

Kurta RP, Donatelli JJ, Yoon CH, ..., Zwart PH, Mancuso AP

Phys. Rev. Lett. 119 (15) 158102 [2017-10-13; online 2017-10-12]

Affiliated researcher

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Management of rivaroxaban- or apixaban-associated major bleeding with prothrombin complex concentrates: a cohort study.

Majeed A, Ågren A, Holmström M, ..., Frisk T, Schulman S

Blood 130 (15) 1706-1712 [2017-10-12; online 2017-08-23]

Affiliated researcher

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Identification of 76 novel B1 metallo-β-lactamases through large-scale screening of genomic and metagenomic data.

Berglund F, Marathe NP, Österlund T, ..., Larsson DGJ, Kristiansson E

Microbiome 5 (1) 134 [2017-10-12; online 2017-10-12]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Fragment-Based Discovery and Optimization of Enzyme Inhibitors by Docking of Commercial Chemical Space.

Rudling A, Gustafsson R, Almlöf I, ..., Stenmark P, Carlsson J

J Med Chem 60 (19) 8160-8169 [2017-10-12; online 2017-10-03]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Spatial detection of fetal marker genes expressed at low level in adult human heart tissue.

Asp M, Salmén F, Ståhl PL, ..., Linde C, Lundeberg J

Sci Rep 7 (1) 12941 [2017-10-11; online 2017-10-11]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

Synthesis of 11C-Labelled Ureas by Palladium(II)-Mediated Oxidative Carbonylation.

Roslin S, Brandt P, Nordeman P, ..., Odell LR, Eriksson J

Molecules 22 (10) - [2017-10-10; online 2017-10-10]

Affiliated researcher

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The promise of spatial transcriptomics for neuroscience in the era of molecular cell typing.

Lein E, Borm LE, Linnarsson S

Science 358 (6359) 64-69 [2017-10-06; online 2017-10-07]

Affiliated researcher

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Single-Cell Analysis of Human Pancreas Reveals Transcriptional Signatures of Aging and Somatic Mutation Patterns.

Enge M, Arda HE, Mignardi M, ..., Kim SK, Quake SR

Cell 171 (2) 321-330.e14 [2017-10-05; online 2017-09-28]

Affiliated researcher

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Predicting Causal Relationships from Biological Data: Applying Automated Causal Discovery on Mass Cytometry Data of Human Immune Cells.

Triantafillou S, Lagani V, Heinze-Deml C, ..., Tegner J, Tsamardinos I

Sci Rep 7 (1) 12724 [2017-10-05; online 2017-10-05]

Affiliated researcher

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Chromatin and Single-Cell RNA-Seq Profiling Reveal Dynamic Signaling and Metabolic Transitions during Human Spermatogonial Stem Cell Development.

Guo J, Grow EJ, Yi C, ..., Hotaling JM, Cairns BR

Cell Stem Cell 21 (4) 533-546.e6 [2017-10-05; online 2017-10-07]

Affiliated researcher

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mTOR-sensitive translation: Cleared fog reveals more trees.

Masvidal L, Hulea L, Furic L, Topisirovic I, Larsson O

RNA Biol 14 (10) 1299-1305 [2017-10-03; online 2017-02-10]

Affiliated researcher

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Local irradiation does not enhance the effect of immunostimulatory AdCD40L gene therapy combined with low dose cyclophosphamide in melanoma patients.

Irenaeus S, Schiza A, Mangsbo SM, ..., Loskog A, Ullenhag GJ

Oncotarget 8 (45) 78573-78587 [2017-10-03; online 2017-07-31]

Affiliated researcher

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Using metagenomics to investigate human and environmental resistomes.

Bengtsson-Palme J, Larsson DGJ, Kristiansson E

J Antimicrob Chemother 72 (10) 2690-2703 [2017-10-01; online 2017-07-05]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

The Role of Small RNA-Based Epigenetic Silencing for Purifying Selection on Transposable Elements in Capsella grandiflora.

Horvath R, Slotte T

Genome Biol Evol 9 (10) 2911-2920 [2017-10-01; online 2017-10-17]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

The Evolution of Dark Matter in the Mitogenome of Seed Beetles.

Sayadi A, Immonen E, Tellgren-Roth C, Arnqvist G

Genome Biol Evol 9 (10) 2697-2706 [2017-10-01; online 2017-10-20]

Affiliated researcher

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Synthesis and in vitro evaluation of 5-substituted benzovesamicol analogs containing N-substituted amides as potential positron emission tomography tracers for the vesicular acetylcholine transporter.

Roslin S, De Rosa M, Deuther-Conrad W, ..., Brust P, Larhed M

Bioorg. Med. Chem. 25 (19) 5095-5106 [2017-10-01; online 2017-01-25]

Affiliated researcher

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Switches in Genomic GC Content Drive Shifts of Optimal Codons under Sustained Selection on Synonymous Sites.

Sun Y, Tamarit D, Andersson SGE

Genome Biol Evol 9 (10) 2560-2579 [2017-10-01; online 2016-08-20]

Affiliated researcher

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Shaping the Tumor Stroma and Sparking Immune Activation by CD40 and 4-1BB Signaling Induced by an Armed Oncolytic Virus

Eriksson E, Milenova I, Wenthe J, ..., Alemany R, Loskog A

Clin. Cancer Res. 23 (19) 5846-5857 [2017-10-01; online 2017-05-23]

Affiliated researcher

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Extensive Type II Muscle Fiber Atrophy in Elderly Female Hip Fracture Patients.

Kramer IF, Snijders T, Smeets JSJ, ..., Poeze M, van Loon LJC

J. Gerontol. A Biol. Sci. Med. Sci. 72 (10) 1369-1375 [2017-10-01; online 2017-03-23]

Affiliated researcher

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Differential Impact of Glucose Administered Intravenously and Orally on Circulating miR-375 Levels in Human Subjects.

Yan X, Wang Z, Westberg-Rasmussen S, ..., Gregersen S, Poy MN

J. Clin. Endocrinol. Metab. 102 (10) 3749-3755 [2017-10-01; online 2017-10-04]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Validation of risk stratification models in acute myeloid leukemia using sequencing-based molecular profiling.

Wang M, Lindberg J, Klevebring D, ..., Lehmann S, Grönberg H

Leukemia 31 (10) 2029-2036 [2017-10-00; online 2017-02-07]

Affiliated researcher

PubMed DOI Crossref

Time to review the gold standard for genotyping vancomycin-resistant enterococci in epidemiology: Comparing whole-genome sequencing with PFGE and MLST in three suspected outbreaks in Sweden during 2013-2015.

Lytsy B, Engstrand L, Gustafsson Å, Kaden R

Infect. Genet. Evol. 54 (-) 74-80 [2017-10-00; online 2017-06-15]

Affiliated researcher

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The tyrosine Y2502.39 in Frizzled 4 defines a conserved motif important for structural integrity of the receptor and recruitment of Disheveled.

Strakova K, Matricon P, Yokota C, ..., Bryja V, Schulte G

Cell. Signal. 38 (-) 85-96 [2017-10-00; online 2017-06-29]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Synthesis of 4

Åkerbladh L, Chow SY, Odell LR, Larhed M

ChemistryOpen 6 (5) 620-628 [2017-10-00; online 2017-08-16]

Affiliated researcher

PubMed DOI Crossref

Structures of the human mitochondrial ribosome in native states of assembly.

Brown A, Rathore S, Kimanius D, ..., Amunts A, Ramakrishnan V

Nat. Struct. Mol. Biol. 24 (10) 866-869 [2017-10-00; online 2017-09-11]

Affiliated researcher Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Sparse estimation of gene-gene interactions in prediction models.

Lee S, Pawitan Y, Ingelsson E, Lee Y

Stat Methods Med Res 26 (5) 2319-2332 [2017-10-00; online 2015-08-11]

Affiliated researcher

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Sll1783, a monooxygenase associated with polysaccharide processing in the unicellular cyanobacterium Synechocystis PCC 6803.

Miranda H, Immerzeel P, Gerber L, ..., Mamedov F, Lindblad P

Physiol Plant 161 (2) 182-195 [2017-10-00; online 2017-06-30]

Affiliated researcher

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Self-Healing Silk Fibroin-Based Hydrogel for Bone Regeneration: Dynamic Metal-Ligand Self-Assembly Approach

Shi L, Wang F, Zhu W, ..., Weng X, Ossipov DA

Adv. Funct. Mater. 27 (37) 1700591 [2017-10-00; online 2017-08-02]

Affiliated researcher

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Reduced cell surface levels of GPI-linked markers in a new case with PIGG loss of function.

Zhao JJ, Halvardson J, Knaus A, ..., Thuresson AC, Feuk L

Hum. Mutat. 38 (10) 1394-1401 [2017-10-00; online 2017-06-12]

Affiliated researcher

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Rediscussion on linearity between fibrosis stages and mortality risk in nonalcoholic fatty liver disease patients.

Liu Z, Que S, Mardinoglu A

Hepatology 66 (4) 1357-1358 [2017-10-00; online 2017-09-04]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

PLS3 sequencing in childhood-onset primary osteoporosis identifies two novel disease-causing variants.

Kämpe AJ, Costantini A, Mäkitie RE, ..., Jiao H, Mäkitie O

Osteoporos Int 28 (10) 3023-3032 [2017-10-00; online 2017-07-26]

Affiliated researcher

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New Blood Pressure-Associated Loci Identified in Meta-Analyses of 475 000 Individuals.

Kraja AT, Cook JP, Warren HR, ..., Howson JMM, CHARGE EXOME BP, CHD Exome+, Exome BP, GoT2D:T2DGenes Consortia, The UK Biobank Cardio-Metabolic Traits Consortium Blood Pressure Working Group†

Circ Cardiovasc Genet 10 (5) - [2017-10-00; online 2017-10-17]

Affiliated researcher

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Multi-objective Geometry Optimization of a Gas Cyclone Using Triple-Fidelity Co-Kriging Surrogate Models

Singh P, Couckuyt I, Elsayed K, Deschrijver D, Dhaene T

J Optim Theory Appl 175 (1) 172-193 [2017-10-00; online 2017-05-10]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Mixture effects of 30 environmental contaminants on incident metabolic syndrome-A prospective study.

Lind L, Salihovic S, Lampa E, Lind PM

Environ Int 107 (-) 8-15 [2017-10-00; online 2017-06-22]

Affiliated researcher

PubMed DOI Crossref

Menopausal hormone therapy and cancer risk: An overestimated risk?

Simin J, Tamimi R, Lagergren J, Adami HO, Brusselaers N

Eur. J. Cancer 84 (-) 60-68 [2017-10-00; online 2017-08-04]

Affiliated researcher

PubMed DOI Crossref

Maternal and female fetal testosterone levels are associated with maternal age and gestational weight gain.

Kallak TK, Hellgren C, Skalkidou A, ..., Campbell RE, Sundström Poromaa I

Eur. J. Endocrinol. 177 (4) 379-388 [2017-10-00; online 2017-07-13]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

In Vivo Analysis of the Viable Microbiota and Helicobacter pylori Transcriptome in Gastric Infection and Early Stages of Carcinogenesis.

Thorell K, Bengtsson-Palme J, Liu OH, ..., Lundin SB, Sjöling Å

Infect. Immun. 85 (10) - [2017-10-00; online 2017-09-20]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Improving the economics of NASH/NAFLD treatment through the use of systems biology.

Bosley J, Boren C, Lee S, ..., Boren J, Mardinoglu A

Drug Discov. Today 22 (10) 1532-1538 [2017-10-00; online 2017-07-20]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Immunohistochemical Characterization and Sensitivity to Human Adenovirus Serotypes 3, 5, and 11p of New Cell Lines Derived from Human Diffuse Grade II to IV Gliomas.

Niittykoski M, von Und Zu Fraunberg M, Martikainen M, ..., Jääskeläinen JE, Hinkkanen A

Transl Oncol 10 (5) 772-779 [2017-10-00; online 2017-08-04]

Affiliated researcher

PubMed DOI Crossref

Heparanase confers a growth advantage to differentiating murine embryonic stem cells, and enhances oligodendrocyte formation.

Xiong A, Kundu S, Forsberg M, ..., Li JP, Forsberg-Nilsson K

Matrix Biol. 62 (-) 92-104 [2017-10-00; online 2016-11-23]

Affiliated researcher

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H1N1 vaccination in Sjögren's syndrome triggers polyclonal B cell activation and promotes autoantibody production.

Brauner S, Folkersen L, Kvarnström M, ..., Nordmark G, Wahren-Herlenius M

Ann. Rheum. Dis. 76 (10) 1755-1763 [2017-10-00; online 2017-07-31]

Affiliated researcher

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Generation of induced pluripotent stem cells (ARO-iPSC1-11) from a patient with autosomal recessive osteopetrosis harboring the c.212+1G>T mutation in SNX10 gene.

Xu M, Stattin EL, Murphy M, Barry F

Stem Cell Res 24 (-) 51-54 [2017-10-00; online 2017-07-24]

Affiliated researcher

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Evidence for a Link Between Fkbp5/FKBP5, Early Life Social Relations and Alcohol Drinking in Young Adult Rats and Humans.

Nylander I, Todkar A, Granholm L, ..., Nilsson KW, Comasco E

Mol. Neurobiol. 54 (8) 6225-6234 [2017-10-00; online 2016-10-05]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Effects of labial adhesion on maxillary arch dimensions and nasolabial esthetics in cleft lip and palate: a systematic review.

Thierens L, Brusselaers N, De Roo N, De Pauw G

Oral Dis 23 (7) 889-896 [2017-10-00; online 2017-01-24]

Affiliated researcher

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Dynamics and heterogeneity of brain damage in multiple sclerosis.

Kotelnikova E, Kiani NA, Abad E, ..., Garcia-Ojalvo J, Villoslada P

PLoS Comput Biol 13 (10) e1005757 [2017-10-00; online 2017-10-26]

Affiliated researcher

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Dual Structured Convolutional Neural Network with Feature Augmentation for Quantitative Characterization of Tissue Histology

Valkonen M, Kartasalo K, Liimatainen K, ..., Latonen L, Ruusuvuori P

- - (-) 27-35 [2017-10-00; online 2017-10-00]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Dissecting evolution and disease using comparative vertebrate genomics.

Meadows JRS, Lindblad-Toh K

Nat. Rev. Genet. 18 (10) 624-636 [2017-10-00; online 2017-07-24]

Affiliated researcher

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Cetuximab sensitivity of head and neck squamous cell carcinoma xenografts is associated with treatment-induced reduction in EGFR, pEGFR, and pSrc.

Jedlinski A, Garvin S, Johansson AC, ..., Ponten F, Roberg K

J. Oral Pathol. Med. 46 (9) 717-724 [2017-10-00; online 2017-01-28]

Affiliated researcher

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Breast cancer in young women and prognosis: How important are proliferation markers?

Fredholm H, Magnusson K, Lindström LS, ..., Frisell J, Fredriksson I

Eur. J. Cancer 84 (-) 278-289 [2017-10-00; online 2017-08-29]

Affiliated researcher

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Bioinformatory-assisted analysis of next-generation sequencing data for precision medicine in pancreatic cancer.

Malgerud L, Lindberg J, Wirta V, ..., Grönberg H, Löhr JM

Mol Oncol 11 (10) 1413-1429 [2017-10-00; online 2017-08-08]

Affiliated researcher

PubMed DOI Crossref

Antibody Affinity Against 2009 A/H1N1 Influenza and Pandemrix Vaccine Nucleoproteins Differs Between Childhood Narcolepsy Patients and Controls.

Lind A, Freyhult E, Ramelius A, ..., Elding Larsson H, Lernmark Å

Viral Immunol. 30 (8) 590-600 [2017-10-00; online 2017-08-10]

Affiliated researcher

PubMed DOI Crossref

A drug pocket at the lipid bilayer-potassium channel interface.

Ottosson NE, Silverå Ejneby M, Wu X, ..., Lindahl E, Elinder F

Sci Adv 3 (10) e1701099 [2017-10-00; online 2017-10-25]

Affiliated researcher

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Kinetics of dCas9 target search in

Jones DL, Leroy P, Unoson C, ..., Lawson MJ, Elf J

Science 357 (6358) 1420-1424 [2017-09-29; online 2017-09-28]

Affiliated researcher

PubMed DOI Crossref

Identification of the PAK4 interactome reveals PAK4 phosphorylation of N-WASP and promotion of Arp2/3-dependent actin polymerization.

Zhao M, Spiess M, Johansson HJ, ..., Lehtiö J, Strömblad S

Oncotarget 8 (44) 77061-77074 [2017-09-29; online 2017-08-18]

Affiliated researcher

PubMed DOI Crossref

A Drosophila female pheromone elicits species-specific long-range attraction via an olfactory channel with dual specificity for sex and food.

Lebreton S, Borrero-Echeverry F, Gonzalez F, ..., Becher PG, Witzgall P

BMC Biol. 15 (1) 88 [2017-09-29; online 2017-09-29]

Affiliated researcher

PubMed DOI Crossref

The cryo-EM structure of hibernating 100S ribosome dimer from pathogenic Staphylococcus aureus.

Matzov D, Aibara S, Basu A, ..., Amunts A, Yonath AE

Nat Commun 8 (1) 723 [2017-09-28; online 2017-09-28]

Affiliated researcher Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes.

He S, Stevens SLR, Chan LK, ..., Malmstrom RR, McMahon KD

mSphere 2 (5) - [2017-09-27; online 2017-09-27]

Affiliated researcher

PubMed DOI Crossref

FC1000: normalized gene expression changes of systematically perturbed human cells.

Lönnstedt IM, Nelander S

Stat Appl Genet Mol Biol 16 (4) 217-242 [2017-09-26; online 2017-09-02]

Affiliated researcher

PubMed DOI Crossref

Anti-mycobacterial activity correlates with altered DNA methylation pattern in immune cells from BCG-vaccinated subjects.

Verma D, Parasa VR, Raffetseder J, ..., Netea M, Lerm M

Sci Rep 7 (1) 12305 [2017-09-26; online 2017-09-26]

Affiliated researcher

PubMed DOI Crossref

Phosphoproteomics Reveals Regulatory T Cell-Mediated DEF6 Dephosphorylation That Affects Cytokine Expression in Human Conventional T Cells.

Joshi RN, Binai NA, Marabita F, ..., Tegnér J, Schmidt A

Front Immunol 8 (-) 1163 [2017-09-25; online 2017-09-25]

Affiliated researcher

PubMed DOI Crossref

Autophagy is required for gamete differentiation in the moss Physcomitrella patens.

Sanchez-Vera V, Kenchappa CS, Landberg K, ..., Thelander M, Sundberg E

Autophagy 13 (11) 1939-1951 [2017-09-25; online 2017-09-25]

Affiliated researcher

PubMed DOI Crossref

Antiviral Properties of Chemical Inhibitors of Cellular Anti-Apoptotic Bcl-2 Proteins.

Bulanova D, Ianevski A, Bugai A, ..., Velagapudi V, Kainov DE

Viruses 9 (10) - [2017-09-25; online 2017-09-25]

Affiliated researcher

PubMed DOI Crossref

The regulation of hydroxysteroid 17β-dehydrogenase type 1 and 2 gene expression in breast cancer cell lines by estradiol, dihydrotestosterone, microRNAs, and genes related to breast cancer.

Hilborn E, Stål O, Alexeyenko A, Jansson A

Oncotarget 8 (37) 62183-62194 [2017-09-22; online 2017-07-10]

Affiliated researcher

PubMed DOI Crossref

DESMAN: a new tool for de novo extraction of strains from metagenomes.

Quince C, Delmont TO, Raguideau S, ..., Collins G, Eren AM

Genome Biol. 18 (1) 181 [2017-09-21; online 2017-09-21]

Affiliated researcher

PubMed DOI Crossref

The ribosome assembly gene network is controlled by the feedback regulation of transcription elongation.

Gómez-Herreros F, Margaritis T, Rodríguez-Galán O, ..., Holstege FCP, Chávez S

Nucleic Acids Res. 45 (16) 9302-9318 [2017-09-19; online 2017-06-24]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Polarity-Sensitive Probes for Superresolution Stimulated Emission Depletion Microscopy.

Sezgin E, Schneider F, Zilles V, ..., Klymchenko AS, Eggeling C

Biophys. J. 113 (6) 1321-1330 [2017-09-19; online 2017-07-19]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Tetrahydrobenzothiophene carboxamides: Beyond the kinase domain and into the fatty acid realm.

Llona-Minguez S, Fayezi S, Alihemmati A, ..., Piedrafita FJ, Helleday T

Bioorg. Med. Chem. Lett. 27 (18) 4462-4466 [2017-09-15; online 2017-08-05]

Affiliated researcher

PubMed DOI Crossref

Predicting accurate contacts in thousands of Pfam domain families using PconsC3.

Michel M, Skwark MJ, Menéndez Hurtado D, Ekeberg M, Elofsson A

Bioinformatics 33 (18) 2859-2866 [2017-09-15; online 2017-05-24]

Affiliated researcher

PubMed DOI Crossref

Heparin antagonizes cisplatin resistance of A2780 ovarian cancer cells by affecting the Wnt signaling pathway.

Pfankuchen DB, Baltes F, Batool T, ..., Schlesinger M, Bendas G

Oncotarget 8 (40) 67553-67566 [2017-09-15; online 2017-06-28]

Affiliated researcher

PubMed DOI Crossref

Mass Cytometry Identifies Distinct Lung CD4

Kaiser Y, Lakshmikanth T, Chen Y, ..., Achour A, Grunewald J

Front Immunol 8 (-) 1130 [2017-09-12; online 2017-09-12]

Affiliated researcher

PubMed DOI Crossref

Monitoring drug-serum protein interactions for early ADME prediction through Surface Plasmon Resonance technology.

Fabini E, Danielson UH

J Pharm Biomed Anal 144 (-) 188-194 [2017-09-10; online 2017-03-28]

Affiliated researcher

PubMed DOI Crossref

Multivariate discovery and replication of five novel loci associated with Immunoglobulin G N-glycosylation.

Shen X, Klarić L, Sharapov S, ..., Lauc G, Aulchenko YS

Nat Commun 8 (1) 447 [2017-09-06; online 2017-09-06]

Affiliated researcher

PubMed DOI Crossref

RNA-sequence data normalization through in silico prediction of reference genes: the bacterial response to DNA damage as case study.

Berghoff BA, Karlsson T, Källman T, Wagner EGH, Grabherr MG

BioData Min 10 (-) 30 [2017-09-05; online 2017-09-05]

Affiliated researcher

PubMed DOI Crossref

Cell-type-specific inhibition of the dendritic plateau potential in striatal spiny projection neurons.

Du K, Wu YW, Lindroos R, ..., Ding JB, Kotaleski JH

Proc. Natl. Acad. Sci. U.S.A. 114 (36) E7612-E7621 [2017-09-05; online 2017-08-21]

Affiliated researcher

PubMed DOI Crossref

Analysing Microbial Community Composition through Amplicon Sequencing: From Sampling to Hypothesis Testing.

Hugerth LW, Andersson AF

Front Microbiol 8 (-) 1561 [2017-09-04; online 2017-09-04]

Affiliated researcher DDLS Fellow Luisa Hugerth

DOI Crossref

Integrative taxonomy reveals too extensive lumping and a new species in the moss genus Amphidium (Bryophyta)

Sim-Sim M, Afonina OM, Almeida T, ..., González-Mancebo JM, Stech M

Systematics and Biodiversity 15 (5) 451-463 [2017-09-03; online 2017-01-19]

Affiliated researcher

PubMed DOI Crossref

Computational discovery and functional validation of novel fluoroquinolone resistance genes in public metagenomic data sets.

Boulund F, Berglund F, Flach CF, ..., Larsson DGJ, Kristiansson E

BMC Genomics 18 (1) 682 [2017-09-02; online 2017-09-02]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Trap

Mayor-Ruiz C, Dominguez O, Fernandez-Capetillo O

J. Mol. Biol. 429 (18) 2780-2789 [2017-09-01; online 2017-08-04]

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The Huperzia selago Shoot Tip Transcriptome Sheds New Light on the Evolution of Leaves.

Evkaikina AI, Berke L, Romanova MA, ..., Pawlowski K, Voitsekhovskaja OV

Genome Biol Evol 9 (9) 2444-2460 [2017-09-01; online 2017-09-29]

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Reference Intervals for Fecal Calprotectin in Adults Using Two Different Extraction Methods in the Uppsala-SCAPIS Cohort.

Fall T, Mandic-Havelka A, Helmersson-Karlqvist J, Sundstrom J, Larsson A

Clin. Lab. 63 (9) 1493-1496 [2017-09-01; online 2017-09-08]

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Rapid, High-Throughput Identification of Anthrax-Causing and Emetic Bacillus cereus Group Genome Assemblies via BTyper, a Computational Tool for Virulence-Based Classification of Bacillus cereus Group Isolates by Using Nucleotide Sequencing Data.

Carroll LM, Kovac J, Miller RA, Wiedmann M

Applied and environmental microbiology 83 (17) - [2017-09-01; online 2017-08-17]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Predicting allosteric mutants that increase activity of a major antibiotic resistance enzyme.

Latallo MJ, Cortina GA, Faham S, Nakamoto RK, Kasson PM

Chem Sci 8 (9) 6484-6492 [2017-09-01; online 2017-07-19]

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Multifocus structured illumination microscopy for fast volumetric super-resolution imaging.

Abrahamsson S, Blom H, Agostinho A, ..., Heintzmann R, Brismar H

Biomed Opt Express 8 (9) 4135-4140 [2017-09-01; online 2017-08-17]

Affiliated researcher

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Genome-wide identification of Grainy head targets in

Yao L, Wang S, Westholm JO, ..., Lai EC, Samakovlis C

Development 144 (17) 3145-3155 [2017-09-01; online 2017-07-31]

Affiliated researcher

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E-Science technologies in a workflow for personalized medicine using cancer screening as a case study.

Spjuth O, Karlsson A, Clements M, ..., Litton JE, Palmgren J

J Am Med Inform Assoc 24 (5) 950-957 [2017-09-01; online 2017-04-27]

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Chronic Lymphocytic Leukemia with Mutated IGHV4-34 Receptors: Shared and Distinct Immunogenetic Features and Clinical Outcomes

Xochelli A, Baliakas P, Kavakiotis I, ..., Ghia P, Stamatopoulos K

Clin. Cancer Res. 23 (17) 5292-5301 [2017-09-01; online 2017-05-23]

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Bioinspired coupled helical coils for soft tissue engineering of tubular structures - Improved mechanical behavior of tubular collagen type I templates.

Janke HP, Bohlin J, Lomme RMLM, ..., Feitz WFJ, Oosterwijk E

Acta Biomater 59 (-) 234-242 [2017-09-01; online 2017-06-27]

Affiliated researcher

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Artifact reduction in the CSPAD detectors used for LCLS experiments.

Pietrini A, Nettelblad C

J Synchrotron Radiat 24 (Pt 5) 1092-1097 [2017-09-01; online 2017-08-22]

Affiliated researcher

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A practical guide to build

Montero-Mendieta S, Grabherr M, Lantz H, ..., Webster MT, Vilà C

PeerJ 5 (-) e3702 [2017-09-01; online 2017-09-01]

Affiliated researcher

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Zebularine induces replication-dependent double-strand breaks which are preferentially repaired by homologous recombination.

Orta ML, Pastor N, Burgos-Morón E, ..., Helleday T, Mateos S

DNA Repair (Amst.) 57 (-) 116-124 [2017-09-00; online 2017-07-12]

Affiliated researcher

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Working toward precision medicine: Predicting phenotypes from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges.

Daneshjou R, Wang Y, Bromberg Y, ..., Brenner SE, Morgan AA

Hum. Mutat. 38 (9) 1182-1192 [2017-09-00; online 2017-07-07]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Vascular sprouts induce local attraction of proangiogenic neutrophils.

Christoffersson G, Lomei J, O'Callaghan P, ..., Engblom S, Phillipson M

J Leukoc Biol 102 (3) 741-751 [2017-09-00; online 2017-06-05]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

The relative contribution of DNA methylation and genetic variants on protein biomarkers for human diseases.

Ahsan M, Ek WE, Rask-Andersen M, ..., Gyllensten U, Johansson Å

PLoS Genet 13 (9) e1007005 [2017-09-00; online 2017-09-15]

Affiliated researcher

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The Impact of Liposomal Formulations on the Release and Brain Delivery of Methotrexate: An In Vivo Microdialysis Study.

Hu Y, Rip J, Gaillard PJ, de Lange ECM, Hammarlund-Udenaes M

J Pharm Sci 106 (9) 2606-2613 [2017-09-00; online 2017-03-18]

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The Abl-1 Kinase is Dispensable for NK Cell Inhibitory Signalling and is not Involved in Murine NK Cell Education.

Ganesan S, Luu TT, Chambers BJ, ..., Kadri N, Höglund P

Scand. J. Immunol. 86 (3) 135-142 [2017-09-00; online 2017-06-13]

Affiliated researcher

DOI Crossref

Quantum chemical study of regular and irregular geometries of MgO nanoclusters: Effects on magnetizability, electronic properties and physical characteristics

Manzetti S, Yakovlev A

Materials Chemistry and Physics 199 (-) 7-17 [2017-09-00; online 2017-09-00]

Affiliated researcher

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Performance of in silico tools for the evaluation of p16INK4a (CDKN2A) variants in CAGI.

Carraro M, Minervini G, Giollo M, ..., Moult J, Tosatto SCE

Hum. Mutat. 38 (9) 1042-1050 [2017-09-00; online 2017-05-16]

Abhishek Niroula DDLS Fellow

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Peptide retention time prediction.

Moruz L, Käll L

Mass Spectrom Rev 36 (5) 615-623 [2017-09-00; online 2016-01-22]

Affiliated researcher

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PON-P and PON-P2 predictor performance in CAGI challenges: Lessons learned.

Niroula A, Vihinen M

Hum. Mutat. 38 (9) 1085-1091 [2017-09-00; online 2017-05-02]

Abhishek Niroula DDLS Fellow

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Novel Blood Pressure Locus and Gene Discovery Using Genome-Wide Association Study and Expression Data Sets From Blood and the Kidney.

Wain LV, Vaez A, Jansen R, ..., Caulfield MJ, Ehret GB

Hypertension 70 (3) e4-e19 [2017-09-00; online 2017-07-24]

Affiliated researcher

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Metformin treatment significantly enhances intestinal glucose uptake in patients with type 2 diabetes: Results from a randomized clinical trial.

Koffert JP, Mikkola K, Virtanen KA, ..., Gomez MF, Nuutila P

Diabetes Res. Clin. Pract. 131 (-) 208-216 [2017-09-00; online 2017-07-20]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Impact of common genetic determinants of Hemoglobin A1c on type 2 diabetes risk and diagnosis in ancestrally diverse populations: A transethnic genome-wide meta-analysis.

Wheeler E, Leong A, Liu CT, ..., Barroso I, Meigs JB

PLoS Med. 14 (9) e1002383 [2017-09-00; online 2017-09-12]

Affiliated researcher

PubMed DOI Crossref

Genome scale metabolic modeling of cancer.

Nilsson A, Nielsen J

Metab. Eng. 43 (Pt B) 103-112 [2017-09-00; online 2016-11-04]

Avlant Nilsson DDLS Fellow

PubMed DOI Crossref

Gene-environment interaction study for BMI reveals interactions between genetic factors and physical activity, alcohol consumption and socioeconomic status.

Rask-Andersen M, Karlsson T, Ek WE, Johansson Å

PLoS Genet 13 (9) e1006977 [2017-09-00; online 2017-09-05]

Affiliated researcher

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Dysregulations in circulating sphingolipids associate with disease activity indices in female patients with systemic lupus erythematosus: a cross-sectional study.

Checa A, Idborg H, Zandian A, ..., Gunnarsson I, Wheelock CE

Lupus 26 (10) 1023-1033 [2017-09-00; online 2017-01-29]

Affiliated researcher

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Drug sensitivity and resistance testing identifies PLK1 inhibitors and gemcitabine as potent drugs for malignant peripheral nerve sheath tumors.

Kolberg M, Bruun J, Murumägi A, ..., Kallioniemi O, Lothe RA

Mol Oncol 11 (9) 1156-1171 [2017-09-00; online 2017-07-05]

Affiliated researcher

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Clinical Pharmacogenetics Implementation Consortium (CPIC) Guideline for Pharmacogenetics-Guided Warfarin Dosing: 2017 Update.

Johnson JA, Caudle KE, Gong L, ..., Cavallari LH, Wadelius M

Clin. Pharmacol. Ther. 102 (3) 397-404 [2017-09-00; online 2017-04-04]

Affiliated researcher

PubMed DOI Crossref

Analytically Sensitive Protein Detection in Microtiter Plates by Proximity Ligation with Rolling Circle Amplification.

Ebai T, Souza de Oliveira FM, Löf L, ..., Landegren U, Kamali-Moghaddam M

Clin. Chem. 63 (9) 1497-1505 [2017-09-00; online 2017-06-30]

Affiliated researcher

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A single nucleotide polymorphism in the NCF1 gene leading to reduced oxidative burst is associated with systemic lupus erythematosus

Olsson LM, Johansson ÅC, Gullstrand B, ..., Bengtsson AA, Holmdahl R

Ann Rheum Dis 76 (9) 1607-1613 [2017-09-00; online 2017-06-12]

Affiliated researcher

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A CRISPR-Cas9 Generated MDCK Cell Line Expressing Human MDR1 Without Endogenous Canine MDR1 (cABCB1): An Improved Tool for Drug Efflux Studies.

Karlgren M, Simoff I, Backlund M, ..., Oswald S, Artursson P

J Pharm Sci 106 (9) 2909-2913 [2017-09-00; online 2017-04-24]

Affiliated researcher

PubMed DOI Crossref

Silencing FLI or targeting CD13/ANPEP lead to dephosphorylation of EPHA2, a mediator of BRAF inhibitor resistance, and induce growth arrest or apoptosis in melanoma cells.

Azimi A, Tuominen R, Costa Svedman F, ..., Hansson J, Egyhazi Brage S

Cell Death Dis 8 (8) e3029 [2017-08-31; online 2017-08-31]

Affiliated researcher

PubMed DOI Crossref

Importance of N- and C-terminal residues of substance P 1-7 for alleviating allodynia in mice after peripheral administration.

Skogh A, Lesniak A, Gaugaz FZ, ..., Hallberg M, Sandström A

Eur J Pharm Sci 106 (-) 345-351 [2017-08-30; online 2017-06-03]

Affiliated researcher

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Gearing up to handle the mosaic nature of life in the quest for orthologs.

Forslund K, Pereira C, Capella-Gutierrez S, ..., Dessimoz C, Lewis S

Bioinformatics - (-) - [2017-08-30; online 2017-08-30]

Affiliated researcher

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Atropos: specific, sensitive, and speedy trimming of sequencing reads.

Didion JP, Martin M, Collins FS

PeerJ 5 (-) e3720 [2017-08-30; online 2017-08-30]

Affiliated researcher

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Synthetic lethality between androgen receptor signalling and the PARP pathway in prostate cancer.

Asim M, Tarish F, Zecchini HI, ..., Neal D, Helleday T

Nat Commun 8 (1) 374 [2017-08-29; online 2017-08-29]

Affiliated researcher

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Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI.

Hamilton JJ, Garcia SL, Brown BS, ..., Forest KT, McMahon KD

mSystems 2 (4) - [2017-08-29; online 2017-08-29]

Sarahi Garcia SciLifeLab Fellow

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Mass Cytometry and Topological Data Analysis Reveal Immune Parameters Associated with Complications after Allogeneic Stem Cell Transplantation.

Lakshmikanth T, Olin A, Chen Y, ..., Omazic B, Brodin P

Cell Reports 20 (9) 2238-2250 [2017-08-29; online 2017-08-31]

Affiliated researcher

PubMed DOI Crossref

A p53-dependent response limits the viability of mammalian haploid cells.

Olbrich T, Mayor-Ruiz C, Vega-Sendino M, ..., Ruiz S, Fernandez-Capetillo O

Proc. Natl. Acad. Sci. U.S.A. 114 (35) 9367-9372 [2017-08-29; online 2017-08-14]

Affiliated researcher

PubMed DOI Crossref

Plasmacytoid dendritic cells and RNA-containing immune complexes drive expansion of peripheral B cell subsets with an SLE-like phenotype.

Berggren O, Hagberg N, Alexsson A, ..., Rönnblom L, Eloranta ML

PLoS ONE 12 (8) e0183946 [2017-08-28; online 2017-08-28]

Affiliated researcher

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The effect of the TM6SF2 E167K variant on liver steatosis and fibrosis in patients with chronic hepatitis C: a meta-analysis.

Liu Z, Que S, Zhou L, ..., Mardinoglu A, Valenti L

Sci Rep 7 (1) 9273 [2017-08-24; online 2017-08-24]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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DNA Polymerase λ Active Site Favors a Mutagenic Mispair between the Enol Form of Deoxyguanosine Triphosphate Substrate and the Keto Form of Thymidine Template: A Free Energy Perturbation Study.

Maximoff SN, Kamerlin SCL, Florián J

J Phys Chem B 121 (33) 7813-7822 [2017-08-24; online 2017-08-14]

Affiliated researcher

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Cerium oxide nanoparticles inhibit differentiation of neural stem cells.

Gliga AR, Edoff K, Caputo F, ..., Ceccatelli S, Fadeel B

Sci Rep 7 (1) 9284 [2017-08-24; online 2017-08-24]

Affiliated researcher

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Metabolomic Profiling of Extracellular Vesicles and Alternative Normalization Methods Reveal Enriched Metabolites and Strategies to Study Prostate Cancer-Related Changes.

Puhka M, Takatalo M, Nordberg ME, ..., Siljander PR, Af Hällström TM

Theranostics 7 (16) 3824-3841 [2017-08-23; online 2017-08-23]

Affiliated researcher

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Clathrin-Independent Endocytosis Suppresses Cancer Cell Blebbing and Invasion.

Holst MR, Vidal-Quadras M, Larsson E, ..., Landström M, Lundmark R

Cell Reports 20 (8) 1893-1905 [2017-08-22; online 2017-08-24]

Affiliated researcher

PubMed DOI Crossref

Antibiotic susceptibility testing in less than 30 min using direct single-cell imaging.

Baltekin Ö, Boucharin A, Tano E, Andersson DI, Elf J

Proc. Natl. Acad. Sci. U.S.A. 114 (34) 9170-9175 [2017-08-22; online 2017-08-08]

Affiliated researcher

PubMed DOI Crossref

PDGF-BB enhances collagen gel contraction through a PI3K-PLCγ-PKC-cofilin pathway.

Reyhani V, Tsioumpekou M, van Wieringen T, ..., Lennartsson J, Rubin K

Sci Rep 7 (1) 8924 [2017-08-21; online 2017-08-21]

Affiliated researcher

PubMed DOI Crossref

Network analyses identify liver-specific targets for treating liver diseases.

Lee S, Zhang C, Liu Z, ..., Boren J, Mardinoglu A

Mol Syst Biol 13 (8) 938 [2017-08-21; online 2017-08-21]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow Simon Elsässer

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Fibromodulin deficiency reduces collagen structural network but not glycosaminoglycan content in a syngeneic model of colon carcinoma.

Olsson PO, Kalamajski S, Maccarana M, Oldberg Å, Rubin K

PLoS ONE 12 (8) e0182973 [2017-08-21; online 2017-08-21]

Affiliated researcher

PubMed DOI Crossref

A pathology atlas of the human cancer transcriptome.

Uhlen M, Zhang C, Lee S, ..., Mardinoglu A, Ponten F

Science (New York, N.Y.) 357 (6352) eaan2507 [2017-08-18; online 2017-08-19]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

The impact of RNA sequence library construction protocols on transcriptomic profiling of leukemia.

Kumar A, Kankainen M, Parsons A, ..., Mattila P, Heckman CA

BMC Genomics 18 (1) 629 [2017-08-17; online 2017-08-17]

Affiliated researcher

PubMed DOI Crossref

Transcriptional response to stress is pre-wired by promoter and enhancer architecture.

Vihervaara A, Mahat DB, Guertin MJ, ..., Lis JT, Sistonen L

Nat Commun 8 (1) 255 [2017-08-15; online 2017-08-15]

Anniina Vihervaara SciLifeLab Fellow

PubMed DOI Crossref

Tea and coffee consumption in relation to DNA methylation in four European cohorts.

Ek WE, Tobi EW, Ahsan M, ..., Johansson Å, Epigenome-Wide Association Study Consortium

Hum. Mol. Genet. 26 (16) 3221-3231 [2017-08-15; online 2017-05-24]

Affiliated researcher

PubMed DOI Crossref

SubCons: a new ensemble method for improved human subcellular localization predictions.

Salvatore M, Warholm P, Shu N, Basile W, Elofsson A

Bioinformatics 33 (16) 2464-2470 [2017-08-15; online 2017-04-14]

Affiliated researcher

PubMed DOI Crossref

ST Pipeline: an automated pipeline for spatial mapping of unique transcripts.

Navarro JF, Sjöstrand J, Salmén F, Lundeberg J, Ståhl PL

Bioinformatics 33 (16) 2591-2593 [2017-08-15; online 2017-04-12]

Affiliated researcher

PubMed DOI Crossref

Diverse heterocyclic scaffolds as dCTP pyrophosphatase 1 inhibitors. Part 1: Triazoles, triazolopyrimidines, triazinoindoles, quinoline hydrazones and arylpiperazines.

Llona-Minguez S, Häggblad M, Martens U, ..., Scobie M, Helleday T

Bioorg. Med. Chem. Lett. 27 (16) 3897-3904 [2017-08-15; online 2017-06-16]

Affiliated researcher

PubMed DOI Crossref

Transcriptome sequencing in pediatric acute lymphoblastic leukemia identifies fusion genes associated with distinct DNA methylation profiles.

Marincevic-Zuniga Y, Dahlberg J, Nilsson S, ..., Nordlund J, Syvänen AC

J Hematol Oncol 10 (1) 148 [2017-08-14; online 2017-08-14]

Affiliated researcher

PubMed DOI Crossref

Genomic exploration of the diversity, ecology, and evolution of the archaeal domain of life.

Spang A, Caceres EF, Ettema TJG

Science 357 (6351) - [2017-08-11; online 2017-08-12]

Affiliated researcher

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High Contrast PET Imaging of GRPR Expression in Prostate Cancer Using Cobalt-Labeled Bombesin Antagonist RM26.

Mitran B, Thisgaard H, Rosenström U, ..., Tolmachev V, Orlova A

Contrast Media Mol Imaging 2017 (-) 6873684 [2017-08-10; online 2017-08-10]

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Automated Training of Deep Convolutional Neural Networks for Cell Segmentation.

Sadanandan SK, Ranefall P, Le Guyader S, Wählby C

Sci Rep 7 (1) 7860 [2017-08-10; online 2017-08-10]

Affiliated researcher

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Agonist-induced dimer dissociation as a macromolecular step in G protein-coupled receptor signaling.

Petersen J, Wright SC, Rodríguez D, ..., Carlsson J, Schulte G

Nat Commun 8 (1) 226 [2017-08-09; online 2017-08-09]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Adaptive Mistranslation Accelerates the Evolution of Fluconazole Resistance and Induces Major Genomic and Gene Expression Alterations in

Weil T, Santamaría R, Lee W, ..., Berman J, Santos MAS

mSphere 2 (4) - [2017-08-09; online 2017-08-09]

Affiliated researcher

PubMed DOI Crossref

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, ..., Hugenholtz P, Woyke T

Nat. Biotechnol. 35 (8) 725-731 [2017-08-08; online 2017-08-09]

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Long-term follow-up in primary Sjögren's syndrome reveals differences in clinical presentation between female and male patients.

Ramírez Sepúlveda JI, Kvarnström M, Eriksson P, ..., Nordmark G, Wahren-Herlenius M

Biol Sex Differ 8 (1) 25 [2017-08-08; online 2017-08-08]

Affiliated researcher

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Design and synthesis of theranostic antibiotic nanodrugs that display enhanced antibacterial activity and luminescence.

Xie S, Manuguri S, Proietti G, ..., Ramström O, Yan M

Proc. Natl. Acad. Sci. U.S.A. 114 (32) 8464-8469 [2017-08-08; online 2017-07-25]

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Use of Proteomics To Investigate Kidney Function Decline over 5 Years.

Carlsson AC, Ingelsson E, Sundström J, ..., Lind L, Ärnlöv J

Clin J Am Soc Nephrol 12 (8) 1226-1235 [2017-08-07; online 2017-07-21]

Affiliated researcher

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The complete mitochondrial genome of the copepod Calanus glacialis.

Choquet M, Alves Monteiro HJ, Bengtsson-Palme J, Hoarau G

Mitochondrial DNA B Resour 2 (2) 506-507 [2017-08-06; online 2017-08-06]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Route to 3-Amidino Indoles via Pd(II)-Catalyzed C-H Bond Activation.

Rydfjord J, Skillinghaug B, Brandt P, Odell LR, Larhed M

Org. Lett. 19 (15) 4066-4069 [2017-08-04; online 2017-07-25]

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Improving the phenotype predictions of a yeast genome-scale metabolic model by incorporating enzymatic constraints.

Sánchez BJ, Zhang C, Nilsson A, ..., Kerkhoven EJ, Nielsen J

Mol Syst Biol 13 (8) 935 [2017-08-03; online 2017-08-03]

Affiliated researcher Avlant Nilsson

PubMed DOI Crossref

p16(Ink4a) and senescence-associated β-galactosidase can be induced in macrophages as part of a reversible response to physiological stimuli.

Hall BM, Balan V, Gleiberman AS, ..., Chernova OB, Gudkov AV

Aging (Albany NY) 9 (8) 1867-1884 [2017-08-02; online 2017-08-05]

Camila Consiglio DDLS Fellow

PubMed DOI Crossref

Enzyme Architecture: Modeling the Operation of a Hydrophobic Clamp in Catalysis by Triosephosphate Isomerase.

Kulkarni YS, Liao Q, Petrović D, ..., Richard JP, Kamerlin SCL

J. Am. Chem. Soc. 139 (30) 10514-10525 [2017-08-02; online 2017-07-19]

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Elsässer et al. reply.

Elsässer SJ, Noh KM, Diaz N, Allis CD, Banaszynski LA

Nature 548 (7665) E7-E9 [2017-08-02; online 2017-08-05]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Validation of onchocerciasis biomarker N-acetyltyramine-O-glucuronide (NATOG).

Globisch D, Eubanks LM, Shirey RJ, ..., Hoerauf A, Janda KD

Bioorg. Med. Chem. Lett. 27 (15) 3436-3440 [2017-08-01; online 2017-05-29]

Affiliated researcher Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

The expression of opioid genes in non-classical reward areas depends on early life conditions and ethanol intake.

Granholm L, Todkar A, Bergman S, ..., Comasco E, Nylander I

Brain Res 1668 (-) 36-45 [2017-08-01; online 2017-05-13]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Sudden cardiac death among the young in Sweden from 2000 to 2010: an autopsy-based study.

Wisten A, Krantz P, Stattin EL

Europace 19 (8) 1327-1334 [2017-08-01; online 2017-09-07]

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Plasma Mannose Levels Are Associated with Incident Type 2 Diabetes and Cardiovascular Disease.

Mardinoglu A, Stančáková A, Lotta LA, ..., Langenberg C, Smith U

Cell Metab. 26 (2) 281-283 [2017-08-01; online 2017-08-03]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Novel genetic loci associated with long-term deterioration in blood lipid concentrations and coronary artery disease in European adults.

Varga TV, Kurbasic A, Aine M, ..., Renström F, Franks PW

Int J Epidemiol 46 (4) 1211-1222 [2017-08-01; online 2016-11-20]

Affiliated researcher

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Improved positioning and detectability of microparticles in droplet microfluidics using two-dimensional acoustophoresis

Ohlin M, Fornell A, Bruus H, Tenje M

J. Micromech. Microeng. 27 (8) 084002 [2017-08-01; online 2017-07-20]

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Gene Duplication Leads to Altered Membrane Topology of a Cytochrome P450 Enzyme in Seed Plants.

Renault H, De Marothy M, Jonasson G, ..., von Heijne G, Werck-Reichhart D

Mol. Biol. Evol. 34 (8) 2041-2056 [2017-08-01; online 2017-05-16]

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PubMed DOI Crossref

Diverse heterocyclic scaffolds as dCTP pyrophosphatase 1 inhibitors. Part 2: Pyridone- and pyrimidinone-derived systems.

Llona-Minguez S, Häggblad M, Martens U, ..., Scobie M, Helleday T

Bioorg. Med. Chem. Lett. 27 (15) 3219-3225 [2017-08-01; online 2017-06-15]

Affiliated researcher

PubMed DOI Crossref

Comparison of four DNA extraction methods for comprehensive assessment of 16S rRNA bacterial diversity in marine biofilms using high-throughput sequencing.

Corcoll N, Österlund T, Sinclair L, ..., Backhaus T, Eriksson KM

FEMS Microbiol. Lett. 364 (14) - [2017-08-01; online 2017-07-05]

Affiliated researcher

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With me or against me: Tumor suppressor and drug resistance activities of SAMHD1.

Herold N, Rudd SG, Sanjiv K, ..., Henter JI, Schaller T

Exp. Hematol. 52 (-) 32-39 [2017-08-00; online 2017-05-11]

Affiliated researcher

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Vimentin deficiency in macrophages induces CD36-mediated inflammation

Håversen L, Ståhlman M, Mattson Hultén L, ..., Levin M, Borén J

Atherosclerosis 263 (-) e87-e88 [2017-08-00; online 2017-08-00]

Adil Mardinoglu SciLifeLab Fellow

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The structure of the tetanus toxin reveals pH-mediated domain dynamics.

Masuyer G, Conrad J, Stenmark P

EMBO Rep. 18 (8) 1306-1317 [2017-08-00; online 2017-06-23]

Affiliated researcher

PubMed DOI Crossref

The novel bacterial phylum Calditrichaeota is diverse, widespread and abundant in marine sediments and has the capacity to degrade detrital proteins.

Marshall IPG, Starnawski P, Cupit C, ..., Schramm A, Kjeldsen KU

Environ Microbiol Rep 9 (4) 397-403 [2017-08-00; online 2017-06-27]

Affiliated researcher

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The cancer-immunity cycle as rational design for synthetic cancer drugs: Novel DC vaccines and CAR T-cells.

Ramachandran M, Dimberg A, Essand M

Semin. Cancer Biol. 45 (-) 23-35 [2017-08-00; online 2017-02-28]

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The anticancer effect of mebendazole may be due to M1 monocyte/macrophage activation via ERK1/2 and TLR8-dependent inflammasome activation.

Blom K, Senkowski W, Jarvius M, ..., Nygren P, Larsson R

Immunopharmacol Immunotoxicol 39 (4) 199-210 [2017-08-00; online 2017-05-04]

Affiliated researcher

PubMed DOI Crossref

Structural pathway of regulated substrate transfer and threading through an Hsp100 disaggregase.

Deville C, Carroni M, Franke KB, ..., Mogk A, Saibil HR

Sci Adv 3 (8) e1701726 [2017-08-00; online 2017-08-04]

Affiliated researcher

PubMed DOI Crossref

Searching for Biosignatures in Exoplanetary Impact Ejecta.

Cataldi G, Brandeker A, Thébault P, ..., Neubeck A, Olofsson G

Astrobiology 17 (8) 721-746 [2017-08-00; online 2017-07-10]

Affiliated researcher

PubMed DOI Crossref

Replication stress, DNA damage signalling, and cytomegalovirus infection in human medulloblastomas.

Bartek J, Fornara O, Merchut-Maya JM, ..., Söderberg Naucler C, Bartkova J

Mol Oncol 11 (8) 945-964 [2017-08-00; online 2017-06-17]

Affiliated researcher

PubMed DOI Crossref

Poorly known microbial taxa dominate the microbiome of permafrost thaw ponds.

Wurzbacher C, Nilsson RH, Rautio M, Peura S

ISME J 11 (8) 1938-1941 [2017-08-00; online 2017-04-21]

Affiliated researcher Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

Objective automated quantification of fluorescence signal in histological sections of rat lens.

Talebizadeh N, Hagström NZ, Yu Z, ..., Söderberg P, Wählby C

Cytometry A 91 (8) 815-821 [2017-08-00; online 2017-05-11]

Affiliated researcher

PubMed DOI Crossref

Northeast African genomic variation shaped by the continuity of indigenous groups and Eurasian migrations.

Hollfelder N, Schlebusch CM, Günther T, ..., Hassan HY, Jakobsson M

PLoS Genet 13 (8) e1006976 [2017-08-00; online 2017-08-24]

Affiliated researcher

PubMed DOI Crossref

Multiple pathogen biomarker detection using an encoded bead array in droplet PCR.

Periyannan Rajeswari PK, Soderberg LM, Yacoub A, ..., Andersson Svahn H, Joensson HN

J. Microbiol. Methods 139 (-) 22-28 [2017-08-00; online 2017-04-20]

Affiliated researcher

PubMed DOI Crossref

Molecular composition and distribution of gap junctions in the sensory epithelium of the human cochlea-a super-resolution structured illumination microscopy (SR-SIM) study.

Liu W, Li H, Edin F, ..., Pfaller K, Rask-Andersen H

Ups. J. Med. Sci. 122 (3) 160-170 [2017-08-00; online 2017-05-17]

Affiliated researcher

PubMed DOI Crossref

Inhibition of Heparanase in Pediatric Brain Tumor Cells Attenuates their Proliferation, Invasive Capacity, and

Spyrou A, Kundu S, Haseeb L, ..., Vlodavsky I, Forsberg-Nilsson K

Mol. Cancer Ther. 16 (8) 1705-1716 [2017-08-00; online 2017-07-17]

Affiliated researcher

PubMed DOI Crossref

Improvement of myocardial infarction risk prediction via inflammation-associated metabolite biomarkers.

Ward-Caviness CK, Xu T, Aspelund T, ..., Wang-Sattler R, Peters A

Heart 103 (16) 1278-1285 [2017-08-00; online 2017-03-02]

Affiliated researcher

PubMed DOI Crossref

Heterogeneous gene duplications can be adaptive because they permanently associate overdominant alleles.

Milesi P, Weill M, Lenormand T, Labbé P

Evol Lett 1 (3) 169-180 [2017-08-00; online 2017-07-21]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Genotype-covariate interaction effects and the heritability of adult body mass index.

Robinson MR, English G, Moser G, ..., Cesarini D, Visscher PM

Nat. Genet. 49 (8) 1174-1181 [2017-08-00; online 2017-07-10]

Affiliated researcher

PubMed DOI Crossref

Genomewide patterns of variation in genetic diversity are shared among populations, species and higher-order taxa.

Vijay N, Weissensteiner M, Burri R, ..., Ellegren H, Wolf JBW

Mol. Ecol. 26 (16) 4284-4295 [2017-08-00; online 2017-06-27]

Affiliated researcher

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Epigenetic Regulation of ZBTB18 Promotes Glioblastoma Progression.

Fedele V, Dai F, Masilamani AP, ..., Bredel M, Carro MS

Mol. Cancer Res. 15 (8) 998-1011 [2017-08-00; online 2017-05-16]

Affiliated researcher

PubMed DOI Crossref

Engineered Cpf1 variants with altered PAM specificities.

Gao L, Cox DBT, Yan WX, ..., Crosetto N, Zhang F

Nat. Biotechnol. 35 (8) 789-792 [2017-08-00; online 2017-06-05]

Affiliated researcher

PubMed DOI Crossref

Domestication rewired gene expression and nucleotide diversity patterns in tomato.

Sauvage C, Rau A, Aichholz C, ..., David J, Glémin S

Plant J. 91 (4) 631-645 [2017-08-00; online 2017-06-12]

Affiliated researcher

PubMed DOI Crossref

Comprehensive Profiling of the Androgen Receptor in Liquid Biopsies from Castration-resistant Prostate Cancer Reveals Novel Intra-AR Structural Variation and Splice Variant Expression Patterns.

De Laere B, van Dam PJ, Whitington T, ..., Grönberg H, Lindberg J

Eur. Urol. 72 (2) 192-200 [2017-08-00; online 2017-01-16]

Affiliated researcher

PubMed DOI Crossref

Comparison of cellular location and expression of Plakophilin-2 in epidermal cells from nonlesional atopic skin and healthy skin in German shepherd dogs.

Ardesjö-Lundgren B, Tengvall K, Bergvall K, ..., Lindblad-Toh K, Andersson G

Vet. Dermatol. 28 (4) 377-e88 [2017-08-00; online 2017-04-06]

Affiliated researcher

PubMed DOI Crossref

Childhood adiposity and risk of type 1 diabetes: A Mendelian randomization study.

Censin JC, Nowak C, Cooper N, ..., Todd JA, Fall T

PLoS Med. 14 (8) e1002362 [2017-08-00; online 2017-08-01]

Affiliated researcher

PubMed DOI Crossref

CTCF counter-regulates cardiomyocyte development and maturation programs in the embryonic heart.

Gomez-Velazquez M, Badia-Careaga C, Lechuga-Vieco AV, ..., Gomez-Skarmeta JL, Manzanares M

PLoS Genet 13 (8) e1006985 [2017-08-00; online 2017-08-28]

Affiliated researcher

PubMed DOI Crossref

CKM Glu83Gly Is Associated With Blunted Creatine Kinase Variation, but Not With Myalgia.

Siddiqui MK, Veluchamy A, Maroteau C, ..., Palmer CNA, PREDICTION-ADR Consortium

Circ Cardiovasc Genet 10 (4) - [2017-08-00; online 2017-08-10]

Affiliated researcher

PubMed DOI Crossref

Biophysical analysis of the dynamics of calmodulin interactions with neurogranin and Ca

Seeger C, Talibov VO, Danielson UH

J. Mol. Recognit. 30 (8) - [2017-08-00; online 2017-04-27]

Affiliated researcher

PubMed DOI Crossref

Binding of canonical Wnt ligands to their receptor complexes occurs in ordered plasma membrane environments.

Sezgin E, Azbazdar Y, Ng XW, ..., Eggeling C, Ozhan G

FEBS J. 284 (15) 2513-2526 [2017-08-00; online 2017-07-06]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Allopregnanolone levels and depressive symptoms during pregnancy in relation to single nucleotide polymorphisms in the allopregnanolone synthesis pathway.

Hellgren C, Comasco E, Skalkidou A, Sundström-Poromaa I

Horm Behav 94 (-) 106-113 [2017-08-00; online 2017-07-20]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Addition of exogenous sodium palmitate increases the IAPP/insulin mRNA ratio via GPR40 in human EndoC-βH1 cells.

Krizhanovskii C, Fred RG, Oskarsson ME, Westermark GT, Welsh N

Ups. J. Med. Sci. 122 (3) 149-159 [2017-08-00; online 2017-10-05]

Affiliated researcher

PubMed DOI Crossref

A Biopsychosocial Approach to Risk and Resilience on Behavior in Children Followed from Birth to Age 12.

Agnafors S, Svedin CG, Oreland L, ..., Comasco E, Sydsjö G

Child Psychiatry Hum Dev 48 (4) 584-596 [2017-08-00; online 2016-09-16]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

A

Dumanski JP, Rasi C, Björklund P, ..., Hellman P, Tiensuu Janson E

Endocr. Relat. Cancer 24 (8) 427-443 [2017-08-00; online 2017-06-20]

Affiliated researcher

PubMed DOI Crossref

Structure and topology around the cleavage site regulate post-translational cleavage of the HIV-1 gp160 signal peptide.

Snapp EL, McCaul N, Quandte M, ..., Sanders RW, Braakman I

Elife 6 (-) - [2017-07-28; online 2017-07-28]

Affiliated researcher

PubMed DOI Crossref

Rapid signal enhancement method for nanoprobe-based biosensing.

Dias JT, Svedberg G, Nystrand M, Andersson-Svahn H, Gantelius J

Sci Rep 7 (1) 6837 [2017-07-28; online 2017-07-28]

Affiliated researcher

PubMed DOI Crossref

Molecular simulations and free-energy calculations suggest conformation-dependent anion binding to a cytoplasmic site as a mechanism for Na+/K+-ATPase ion selectivity.

Razavi AM, Delemotte L, Berlin JR, Carnevale V, Voelz VA

J Biol Chem 292 (30) 12412-12423 [2017-07-28; online 2017-06-06]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Vitamin D-deficient mice have more invasive urinary tract infection.

Hertting O, Lüthje P, Sullivan D, Aspenström P, Brauner A

PLoS ONE 12 (7) e0180810 [2017-07-27; online 2017-07-27]

Affiliated researcher

PubMed DOI Crossref

Health care workers' perceptions of point-of-care testing in a low-income country-A qualitative study in Southwestern Uganda.

Rasti R, Nanjebe D, Karlström J, ..., Boum Y, Alfvén T

PLoS ONE 12 (7) e0182005 [2017-07-27; online 2017-07-27]

Affiliated researcher

PubMed DOI Crossref

Droplet Barcode Sequencing for targeted linked-read haplotyping of single DNA molecules.

Redin D, Borgström E, He M, ..., Käller M, Ahmadian A

Nucleic Acids Res. 45 (13) e125 [2017-07-27; online 2017-05-20]

Affiliated researcher

PubMed DOI Crossref

Untargeted screening for novel autoantibodies with prognostic value in first-episode psychosis.

Zandian A, Wingård L, Nilsson H, ..., Nilsson P, Persson MAA

Transl Psychiatry 7 (7) e1177 [2017-07-25; online 2017-07-25]

Affiliated researcher

PubMed DOI Crossref

Stable membrane orientations of small dual-topology membrane proteins.

Fluman N, Tobiasson V, von Heijne G

Proc. Natl. Acad. Sci. U.S.A. 114 (30) 7987-7992 [2017-07-25; online 2017-07-11]

Affiliated researcher

PubMed DOI Crossref

Prediction of intracellular exposure bridges the gap between target- and cell-based drug discovery.

Mateus A, Gordon LJ, Wayne GJ, ..., Hann MM, Artursson P

Proc. Natl. Acad. Sci. U.S.A. 114 (30) E6231-E6239 [2017-07-25; online 2017-07-12]

Affiliated researcher

PubMed DOI Crossref

Mass Spectrometry Imaging proves differential absorption profiles of well-characterised permeability markers along the crypt-villus axis.

Nilsson A, Peric A, Strimfors M, ..., Andrén PE, Hilgendorf C

Sci Rep 7 (1) 6352 [2017-07-25; online 2017-07-25]

Affiliated researcher

PubMed DOI Crossref

Fragment optimization for GPCRs by molecular dynamics free energy calculations: Probing druggable subpockets of the A 2A adenosine receptor binding site.

Matricon P, Ranganathan A, Warnick E, ..., Jacobson KA, Carlsson J

Sci Rep 7 (1) 6398 [2017-07-25; online 2017-07-25]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Continuous immunotypes describe human immune variation and predict diverse responses.

Kaczorowski KJ, Shekhar K, Nkulikiyimfura D, ..., Chakraborty AK, Brodin P

Proc. Natl. Acad. Sci. U.S.A. 114 (30) E6097-E6106 [2017-07-25; online 2017-07-10]

Affiliated researcher

PubMed DOI Crossref

Novel risk genes for systemic lupus erythematosus predicted by random forest classification.

Almlöf JC, Alexsson A, Imgenberg-Kreuz J, ..., Sandling JK, Syvänen AC

Sci Rep 7 (1) 6236 [2017-07-24; online 2017-07-24]

Affiliated researcher

DOI Crossref

Continuous Flow Synthesis under High-Temperature/High-Pressure Conditions Using a Resistively Heated Flow Reactor

Adeyemi A, Bergman J, Brånalt J, Sävmarker J, Larhed M

Org. Process Res. Dev. 21 (7) 947-955 [2017-07-21; online 2017-06-29]

Affiliated researcher

PubMed DOI Crossref

Tuning Metabolome Coverage in Reversed Phase LC-MS Metabolomics of MeOH Extracted Samples Using the Reconstitution Solvent Composition.

Lindahl A, Sääf S, Lehtiö J, Nordström A

Anal. Chem. 89 (14) 7356-7364 [2017-07-18; online 2017-06-28]

Affiliated researcher

PubMed DOI Crossref

Sex is a moderator of the association between NOS1AP sequence variants and QTc in two long QT syndrome founder populations: a pedigree-based measured genotype association analysis.

Winbo A, Stattin EL, Westin IM, ..., Jensen SM, Rydberg A

BMC Med. Genet. 18 (1) 74 [2017-07-18; online 2017-07-18]

Affiliated researcher

PubMed DOI Crossref

Effects of Detergent Micelles on Lipid Binding to Proteins in Electrospray Ionization Mass Spectrometry.

Landreh M, Costeira-Paulo J, Gault J, Marklund EG, Robinson CV

Anal. Chem. 89 (14) 7425-7430 [2017-07-18; online 2017-07-03]

Affiliated researcher

PubMed DOI Crossref

De novo active sites for resurrected Precambrian enzymes.

Risso VA, Martinez-Rodriguez S, Candel AM, ..., Gavira JA, Sanchez-Ruiz JM

Nat Commun 8 (-) 16113 [2017-07-18; online 2017-07-18]

Affiliated researcher

PubMed DOI Crossref

Transancestral mapping and genetic load in systemic lupus erythematosus.

Langefeld CD, Ainsworth HC, Cunninghame Graham DS, ..., Gaffney PM, Vyse TJ

Nat Commun 8 (-) 16021 [2017-07-17; online 2017-07-17]

Affiliated researcher

PubMed DOI Crossref

High performance micro-flow cytometer based on optical fibres.

Etcheverry S, Faridi A, Ramachandraiah H, ..., Laurell F, Russom A

Sci Rep 7 (1) 5628 [2017-07-17; online 2017-07-17]

Affiliated researcher

PubMed DOI Crossref

Yoctomole electrochemical genosensing of Ebola virus cDNA by rolling circle and circle to circle amplification.

Carinelli S, Kühnemund M, Nilsson M, Pividori MI

Biosens Bioelectron 93 (-) 65-71 [2017-07-15; online 2016-10-11]

Affiliated researcher

PubMed DOI Crossref

Large-scale structure prediction by improved contact predictions and model quality assessment.

Michel M, Menéndez Hurtado D, Uziela K, Elofsson A

Bioinformatics 33 (14) i23-i29 [2017-07-15; online 2017-09-09]

Affiliated researcher

PubMed

Fully automated GMP production of [68Ga]Ga-DO3A-VS-Cys40-Exendin-4 for clinical use.

Velikyan I, Rosenstrom U, Eriksson O

American journal of nuclear medicine and molecular imaging 7 (3) 111-125 [2017-07-15; online 2017-07-15]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Does antifouling paint select for antibiotic resistance?

Flach CF, Pal C, Svensson CJ, ..., Tysklind M, Larsson DGJ

Sci. Total Environ. 590-591 (-) 461-468 [2017-07-15; online 2017-03-08]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Combined PET and microdialysis for in vivo estimation of drug blood-brain barrier transport and brain unbound concentrations.

Gustafsson S, Eriksson J, Syvänen S, ..., Hammarlund-Udenaes M, Antoni G

NeuroImage 155 (-) 177-186 [2017-07-15; online 2017-04-30]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Selection of complementary foods based on optimal nutritional values.

Sen P, Mardinogulu A, Nielsen J

Sci Rep 7 (1) 5413 [2017-07-14; online 2017-07-14]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

ATM/Wip1 activities at chromatin control Plk1 re-activation to determine G2 checkpoint duration.

Jaiswal H, Benada J, Müllers E, ..., Macurek L, Lindqvist A

EMBO J. 36 (14) 2161-2176 [2017-07-14; online 2017-06-12]

Affiliated researcher

PubMed DOI Crossref

A TRPV1-to-secretagogin regulatory axis controls pancreatic β-cell survival by modulating protein turnover.

Malenczyk K, Girach F, Szodorai E, ..., Groop L, Harkany T

EMBO J. 36 (14) 2107-2125 [2017-07-14; online 2017-06-21]

Affiliated researcher

PubMed DOI Crossref

Super-resolution optical microscopy for studying membrane structure and dynamics.

Sezgin E

J Phys Condens Matter 29 (27) 273001 [2017-07-12; online 2017-05-08]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

New Challenges to Study Heterogeneity in Cancer Redox Metabolism.

Benfeitas R, Uhlen M, Nielsen J, Mardinoglu A

Front Cell Dev Biol 5 (-) 65 [2017-07-11; online 2017-07-11]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

A proteomic analysis of LRRK2 binding partners reveals interactions with multiple signaling components of the WNT/PCP pathway.

Salašová A, Yokota C, Potěšil D, ..., Bryja V, Arenas E

Mol Neurodegener 12 (1) 54 [2017-07-11; online 2017-07-11]

Affiliated researcher

PubMed DOI Crossref

Y Chromosome Uncovers the Recent Oriental Origin of Modern Stallions.

Wallner B, Palmieri N, Vogl C, ..., Schlötterer C, Brem G

Curr. Biol. 27 (13) 2029-2035.e5 [2017-07-10; online 2017-06-29]

Affiliated researcher

PubMed DOI Crossref

The self-inhibitory nature of metabolic networks and its alleviation through compartmentalization.

Alam MT, Olin-Sandoval V, Stincone A, ..., Luisi BF, Ralser M

Nat Commun 8 (-) 16018 [2017-07-10; online 2017-07-10]

Aleksej Zelezniak SciLifeLab Fellow

PubMed DOI Crossref

eIF5A facilitates translation termination globally and promotes the elongation of many non polyproline-specific tripeptide sequences.

Pelechano V, Alepuz P

Nucleic Acids Res. 45 (12) 7326-7338 [2017-07-07; online 2017-05-27]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Polyplex Evolution: Understanding Biology, Optimizing Performance.

Hall A, Lächelt U, Bartek J, Wagner E, Moghimi SM

Mol. Ther. 25 (7) 1476-1490 [2017-07-05; online 2017-03-06]

Affiliated researcher

PubMed DOI Crossref

Physico-Pathologic Mechanisms Involved in Neurodegeneration: Misfolded Protein-Plasma Membrane Interactions.

Shrivastava AN, Aperia A, Melki R, Triller A

Neuron 95 (1) 33-50 [2017-07-05; online 2017-07-07]

Affiliated researcher

PubMed DOI Crossref

Analysis of IAV Replication and Co-infection Dynamics by a Versatile RNA Viral Genome Labeling Method.

Dou D, Hernández-Neuta I, Wang H, ..., Nilsson M, Daniels R

Cell Reports 20 (1) 251-263 [2017-07-05; online 2017-07-07]

Affiliated researcher

PubMed DOI Crossref

TGF-β promotes PI3K-AKT signaling and prostate cancer cell migration through the TRAF6-mediated ubiquitylation of p85α.

Hamidi A, Song J, Thakur N, ..., Heldin CH, Landström M

Sci Signal 10 (486) - [2017-07-04; online 2017-07-04]

Affiliated researcher

PubMed DOI Crossref

SCENERY: a web application for (causal) network reconstruction from cytometry data.

Papoutsoglou G, Athineou G, Lagani V, ..., Tegnér J, Tsamardinos I

Nucleic Acids Res. 45 (W1) W270-W275 [2017-07-03; online 2017-05-20]

Affiliated researcher

DOI Crossref

Mineral Type Structures Soil Microbial Communities

Ahmed E, Hugerth LW, Logue JB, ..., Andersson AF, Holmström SJM

Geomicrobiology Journal 34 (6) 538-545 [2017-07-03; online 2016-11-22]

Affiliated researcher DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Isoelectric point-based fractionation by HiRIEF coupled to LC-MS allows for in-depth quantitative analysis of the phosphoproteome.

Panizza E, Branca RMM, Oliviusson P, Orre LM, Lehtiö J

Sci Rep 7 (1) 4513 [2017-07-03; online 2017-07-03]

Affiliated researcher

PubMed DOI Crossref

Structure-metabolism-relationships in the microsomal clearance of piperazin-1-ylpyridazines.

Llona-Minguez S, Ghassemian A, Baranczewski P, ..., Scobie M, Helleday T

Med. Chem. Commun. 8 (7) 1553-1560 [2017-07-01; online 2017-07-04]

Affiliated researcher

PubMed DOI Crossref

Fabrication of user-friendly and biomimetic 1,1'-carbonyldiimidazole cross-linked gelatin/agar microfluidic devices.

Jocic S, Mestres G, Tenje M

Mater Sci Eng C Mater Biol Appl 76 (-) 1175-1180 [2017-07-01; online 2017-03-06]

Affiliated researcher

PubMed DOI Crossref

Effects of alternative electron acceptors on the activity and community structure of methane-producing and consuming microbes in the sediments of two shallow boreal lakes.

Rissanen AJ, Karvinen A, Nykänen H, ..., Mäki A, Kankaala P

FEMS Microbiol. Ecol. 93 (7) - [2017-07-01; online 2017-06-24]

Affiliated researcher Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

Dog Exposure During the First Year of Life and Type 1 Diabetes in Childhood.

Wernroth ML, Svennblad B, Fall K, ..., Almqvist C, Fall T

JAMA Pediatr 171 (7) 663-669 [2017-07-01; online 2017-05-02]

Affiliated researcher

PubMed DOI Crossref

Toward molecular imaging of the free fatty acid receptor 1.

Hellström-Lindahl E, Åberg O, Ericsson C, ..., Skrtic S, Eriksson O

Acta diabetologica 54 (7) 663-668 [2017-07-00; online 2017-04-13]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Stability of Proteins in Dried Blood Spot Biobanks.

Björkesten J, Enroth S, Shen Q, ..., Kamali-Moghaddam M, Landegren U

Mol. Cell Proteomics 16 (7) 1286-1296 [2017-07-00; online 2017-05-13]

Affiliated researcher

PubMed DOI Crossref

Numerous Ontogenetic Roads to Mantle Cell Lymphoma: Immunogenetic and Immunohistochemical Evidence.

Pouliou E, Xochelli A, Kanellis G, ..., Stamatopoulos K, Papadaki T

Am. J. Pathol. 187 (7) 1454-1458 [2017-07-00; online 2017-04-28]

Affiliated researcher

PubMed DOI Crossref

Monoclonal B-cell lymphocytosis in a hospital-based UK population and a rural Ugandan population: a cross-sectional study.

Rawstron AC, Ssemaganda A, de Tute R, ..., Asiki G, Newton R

Lancet Haematol 4 (7) e334-e340 [2017-07-00; online 2017-07-03]

Affiliated researcher

PubMed DOI Crossref

MALDI imaging delineates hippocampal glycosphingolipid changes associated with neurotoxin induced proteopathy following neonatal BMAA exposure.

Karlsson O, Michno W, Ransome Y, Hanrieder J

Biochim Biophys Acta Proteins Proteom 1865 (7) 740-746 [2017-07-00; online 2016-12-09]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Low-algorithmic-complexity entropy-deceiving graphs.

Zenil H, Kiani NA, Tegnér J

Phys Rev E 96 (1-1) 012308 [2017-07-00; online 2017-07-07]

Affiliated researcher

PubMed DOI Crossref

Interferon-α coincides with suppressed levels of pentraxin-3 (PTX3) in systemic lupus erythematosus and regulates leucocyte PTX3 in vitro.

Wirestam L, Enocsson H, Skogh T, ..., Sjöwall C, Wetterö J

Clin. Exp. Immunol. 189 (1) 83-91 [2017-07-00; online 2017-03-31]

Affiliated researcher

PubMed DOI Crossref

High frequency of silver resistance genes in invasive isolates of Enterobacter and Klebsiella species.

Sütterlin S, Dahlö M, Tellgren-Roth C, Schaal W, Melhus Å

J. Hosp. Infect. 96 (3) 256-261 [2017-07-00; online 2017-04-26]

Affiliated researcher

PubMed DOI Crossref

Genomewide analysis of admixture and adaptation in the Africanized honeybee.

Nelson RM, Wallberg A, Simões ZLP, Lawson DJ, Webster MT

Mol. Ecol. 26 (14) 3603-3617 [2017-07-00; online 2017-04-24]

Affiliated researcher

PubMed DOI Crossref

Genetic prevention of hepatitis C virus-induced liver fibrosis by allele-specific downregulation of MERTK.

Cavalli M, Pan G, Nord H, ..., Wallerman O, Wadelius C

Hepatol. Res. 47 (8) 826-830 [2017-07-00; online 2016-09-29]

Affiliated researcher

PubMed DOI Crossref

Functionality testing of stem cell grafts to predict infectious complications after allogeneic hematopoietic stem cell transplantation.

Nilsson J, Granrot I, Mattsson J, ..., Uhlin M, Thunberg S

Vox Sang. 112 (5) 459-468 [2017-07-00; online 2017-05-02]

Affiliated researcher

PubMed DOI Crossref

Evaluating and optimizing the performance of software commonly used for the taxonomic classification of DNA metabarcoding sequence data.

Richardson RT, Bengtsson-Palme J, Johnson RM

Mol Ecol Resour 17 (4) 760-769 [2017-07-00; online 2016-11-21]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

EGR2 mutations define a new clinically aggressive subgroup of chronic lymphocytic leukemia.

Young E, Noerenberg D, Mansouri L, ..., Rosenquist R, Damm F

Leukemia 31 (7) 1547-1554 [2017-07-00; online 2016-11-28]

Affiliated researcher

PubMed DOI Crossref

Detection of 6-demethoxyubiquinone in CoQ

Herebian D, Seibt A, Smits SHJ, ..., Mayatepek E, Distelmaier F

Mol. Genet. Metab. 121 (3) 216-223 [2017-07-00; online 2017-05-20]

Affiliated researcher

PubMed DOI Crossref

Constitutive activation of alternative nuclear factor kappa B pathway in canine diffuse large B-cell lymphoma contributes to tumor cell survival and is a target of new adjuvant therapies.

Seelig DM, Ito D, Forster CL, ..., Modiano JF, Linden MA

Leuk. Lymphoma 58 (7) 1702-1710 [2017-07-00; online 2016-12-08]

Affiliated researcher

PubMed DOI Crossref

Close Encounters - Probing Proximal Proteins in Live or Fixed Cells.

Lönn P, Landegren U

Trends Biochem. Sci. 42 (7) 504-515 [2017-07-00; online 2017-05-28]

Affiliated researcher

PubMed DOI Crossref

Autoimmune polyendocrine syndrome type 1 in an Indian cohort: a longitudinal study.

Zaidi G, Bhatia V, Sahoo SK, ..., Agarwal S, Bhatia E

Endocr Connect 6 (5) 289-296 [2017-07-00; online 2017-04-26]

Affiliated researcher

PubMed DOI Crossref

Altered paracellular cation permeability due to a rare CLDN10B variant causes anhidrosis and kidney damage.

Klar J, Piontek J, Milatz S, ..., Günzel D, Dahl N

PLoS Genet 13 (7) e1006897 [2017-07-00; online 2017-07-07]

Affiliated researcher

PubMed DOI Crossref

A longitudinal assessment of miR-122 and GLDH as biomarkers of drug-induced liver injury in the rat.

Thulin P, Hornby RJ, Auli M, ..., Glinghammar B, Schuppe-Koistinen I

Biomarkers 22 (5) 461-469 [2017-07-00; online 2016-12-15]

Affiliated researcher

PubMed DOI Crossref

A human intestinal M-cell-like model for investigating particle, antigen and microorganism translocation.

Beloqui A, Brayden DJ, Artursson P, Préat V, des Rieux A

Nat Protoc 12 (7) 1387-1399 [2017-07-00; online 2017-06-15]

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A durable and biocompatible ascorbic acid-based covalent coating method of polydimethylsiloxane for dynamic cell culture.

Leivo J, Virjula S, Vanhatupa S, ..., Miettinen S, Kallio P

J R Soc Interface 14 (132) - [2017-07-00; online 2017-07-28]

DDLS Fellow Kimmo Kartasalo

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A Low-Frequency Inactivating

Manning A, Highland HM, Gasser J, ..., Gloyn AL, Lindgren CM

Diabetes 66 (7) 2019-2032 [2017-07-00; online 2017-03-24]

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Regulation of Subunit-Specific Germinal Center B Cell Responses to the HIV-1 Envelope Glycoproteins by Antibody-Mediated Feedback.

Forsell MNE, Kvastad L, Sedimbi SK, Andersson J, Karlsson MCI

Front Immunol 8 (-) 738 [2017-06-30; online 2017-06-30]

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Moderate nucleotide diversity in the Atlantic herring is associated with a low mutation rate.

Feng C, Pettersson M, Lamichhaney S, ..., Folkvord A, Andersson L

Elife 6 (-) - [2017-06-30; online 2017-06-30]

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The histone H2A isoform Hist2h2ac is a novel regulator of proliferation and epithelial-mesenchymal transition in mammary epithelial and in breast cancer cells.

Monteiro FL, Vitorino R, Wang J, ..., Jerónimo C, Helguero LA

Cancer Lett. 396 (-) 42-52 [2017-06-28; online 2017-03-11]

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IL-33 stimulates the release of procoagulant microvesicles from human monocytes and differentially increases tissue factor in human monocyte subsets.

Stojkovic S, Thulin Å, Hell L, ..., Siegbahn A, Åberg M

Thromb. Haemost. 117 (7) 1379-1390 [2017-06-28; online 2017-05-11]

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Determination of bending rigidity and tilt modulus of lipid membranes from real-space fluctuation analysis of molecular dynamics simulations.

Doktorova M, Harries D, Khelashvili G

Phys Chem Chem Phys 19 (25) 16806-16818 [2017-06-28; online 2017-06-20]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Advanced Cell Classifier: User-Friendly Machine-Learning-Based Software for Discovering Phenotypes in High-Content Imaging Data.

Piccinini F, Balassa T, Szkalisity A, ..., Smith K, Horvath P

Cell Systems 4 (6) 651-655.e5 [2017-06-28; online 2017-06-21]

Affiliated researcher

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Stroma-regulated HMGA2 is an independent prognostic marker in PDAC and AAC.

Strell C, Norberg KJ, Mezheyeuski A, ..., Johansen JS, Östman A

Br. J. Cancer 117 (1) 65-77 [2017-06-27; online 2017-05-18]

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Oncolytic alphavirus SFV-VA7 efficiently eradicates subcutaneous and orthotopic human prostate tumours in mice.

Martikainen M, Ruotsalainen J, Tuomela J, ..., Heikkilä J, Hinkkanen A

Br. J. Cancer 117 (1) 51-55 [2017-06-27; online 2017-05-30]

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GeneSPIDER - gene regulatory network inference benchmarking with controlled network and data properties.

Tjärnberg A, Morgan DC, Studham M, Nordling TEM, Sonnhammer ELL

Mol Biosyst 13 (7) 1304-1312 [2017-06-27; online 2017-05-10]

Affiliated researcher

PubMed DOI Crossref

Coherent soft X-ray diffraction imaging of coliphage PR772 at the Linac coherent light source.

Reddy HKN, Yoon CH, Aquila A, ..., Williams GJ, Xavier PL

Sci Data 4 (-) 170079 [2017-06-27; online 2017-06-27]

Affiliated researcher

PubMed DOI Crossref

A dynamic and adaptive network of cytosolic interactions governs protein export by the T3SS injectisome.

Diepold A, Sezgin E, Huseyin M, ..., Eggeling C, Armitage JP

Nat Commun 8 (-) 15940 [2017-06-27; online 2017-06-27]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Identification of novel small molecules that inhibit STAT3-dependent transcription and function.

Kolosenko I, Yu Y, Busker S, ..., Page BDG, Grander D

PLoS ONE 12 (6) e0178844 [2017-06-21; online 2017-06-21]

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Systems Biology of Metabolism.

Nielsen J

Annu. Rev. Biochem. 86 (-) 245-275 [2017-06-20; online 2017-03-08]

Affiliated researcher

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Global Kinetic Mechanism of Microsomal Glutathione Transferase 1 and Insights into Dynamic Enzyme Activation.

Spahiu L, Ålander J, Ottosson-Wadlund A, ..., Armstrong RN, Morgenstern R

Biochemistry 56 (24) 3089-3098 [2017-06-20; online 2017-06-09]

Affiliated researcher

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Combining Flow and Mass Cytometry in the Search for Biomarkers in Chronic Graft-versus-Host Disease.

Stikvoort A, Chen Y, Rådestad E, ..., Brodin P, Uhlin M

Front Immunol 8 (-) 717 [2017-06-19; online 2017-06-19]

Affiliated researcher

PubMed DOI Crossref

Synthetic approaches to radiochemical probes for imaging of bacterial infections.

Dutta J, Naicker T, Ebenhan T, ..., Arvidsson PI, Govender T

Eur J Med Chem 133 (-) 287-308 [2017-06-16; online 2017-03-29]

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Whole-Genome Sequencing of Drug-Resistant Salmonella enterica Isolates from Dairy Cattle and Humans in New York and Washington States Reveals Source and Geographic Associations.

Carroll LM, Wiedmann M, den Bakker H, ..., Warnick LD, Pereira RV

Applied and environmental microbiology 83 (12) - [2017-06-15; online 2017-05-31]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Insufficient antibody validation challenges oestrogen receptor beta research.

Andersson S, Sundberg M, Pristovsek N, ..., Williams C, Asplund A

Nat Commun 8 (-) 15840 [2017-06-15; online 2017-06-15]

Affiliated researcher

PubMed DOI Crossref

Identification of the adenovirus type 2 C-168 protein.

Gromova A, Zhao H, Konzer A, ..., Pettersson U, Lind SB

Virus Res. 238 (-) 110-113 [2017-06-15; online 2017-06-16]

Affiliated researcher

PubMed DOI Crossref

Free-Energy Calculations of Ionic Hydration Consistent with the Experimental Hydration Free Energy of the Proton.

Zhang H, Jiang Y, Yan H, ..., Tan T, van der Spoel D

J Phys Chem Lett 8 (12) 2705-2712 [2017-06-15; online 2017-06-06]

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Stimulated Emission Depletion Microscopy.

Blom H, Widengren J

Chem. Rev. 117 (11) 7377-7427 [2017-06-14; online 2017-03-06]

Affiliated researcher

PubMed DOI Crossref

Genetic loci associated with heart rate variability and their effects on cardiac disease risk.

Nolte IM, Munoz ML, Tragante V, ..., Snieder H, de Geus EJC

Nat Commun 8 (-) 15805 [2017-06-14; online 2017-06-14]

Affiliated researcher

PubMed DOI Crossref

Correspondence on Lovell et al.: identification of chicken genes previously assumed to be evolutionarily lost.

Bornelöv S, Seroussi E, Yosefi S, ..., Friedman-Einat M, Andersson L

Genome Biol. 18 (1) 112 [2017-06-14; online 2017-06-14]

Affiliated researcher

PubMed DOI Crossref

Loss of Cardioprotective Effects at the

Saleheen D, Zhao W, Young R, ..., Samani NJ, Reilly MP

Circulation 135 (24) 2336-2353 [2017-06-13; online 2017-05-01]

Affiliated researcher

PubMed DOI Crossref

The deubiquitinating enzymes USP4 and USP17 target hyaluronan synthase 2 and differentially affect its function.

Mehić M, de Sa VK, Hebestreit S, Heldin CH, Heldin P

Oncogenesis 6 (6) e348 [2017-06-12; online 2017-06-12]

Affiliated researcher

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Cohort profile: the Nordic Antireflux Surgery Cohort (NordASCo).

Maret-Ouda J, Wahlin K, Artama M, ..., Euler-Chelpin MV, Lagergren J

BMJ Open 7 (6) e016505 [2017-06-08; online 2017-06-08]

Affiliated researcher

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SNX10 gene mutation leading to osteopetrosis with dysfunctional osteoclasts.

Stattin EL, Henning P, Klar J, ..., Wikström J, Lerner UH

Sci Rep 7 (1) 3012 [2017-06-07; online 2017-06-07]

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Multi-level characterization of balanced inhibitory-excitatory cortical neuron network derived from human pluripotent stem cells.

Nadadhur AG, Emperador Melero J, Meijer M, ..., Verhage M, Heine VM

PLoS ONE 12 (6) e0178533 [2017-06-06; online 2017-06-06]

Affiliated researcher

PubMed DOI Crossref

Integrative modeling of gene and genome evolution roots the archaeal tree of life.

Williams TA, Szöllősi GJ, Spang A, ..., Ettema TJG, Embley TM

Proc. Natl. Acad. Sci. U.S.A. 114 (23) E4602-E4611 [2017-06-06; online 2017-05-22]

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SAMHD1 protects cancer cells from various nucleoside-based antimetabolites.

Herold N, Rudd SG, Sanjiv K, ..., Henter JI, Schaller T

Cell Cycle 16 (11) 1029-1038 [2017-06-03; online 2017-04-24]

Affiliated researcher

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Simultaneous Single-Cell

Krzywkowski T, Ciftci S, Assadian F, Nilsson M, Punga T

J. Virol. 91 (11) - [2017-06-01; online 2017-05-12]

Affiliated researcher

PubMed DOI Crossref

Injury Leads to the Appearance of Cells with Characteristics of Both Microglia and Astrocytes in Mouse and Human Brain.

Wilhelmsson U, Andersson D, de Pablo Y, ..., Pekny M, Pekna M

Cereb. Cortex 27 (6) 3360-3377 [2017-06-01; online 2017-04-12]

Affiliated researcher

PubMed DOI Crossref

Genetic Diversity and the Efficacy of Purifying Selection across Plant and Animal Species.

Chen J, Glémin S, Lascoux M

Mol. Biol. Evol. 34 (6) 1417-1428 [2017-06-01; online 2017-03-24]

Affiliated researcher

PubMed DOI Crossref

Evidence for large-scale gene-by-smoking interaction effects on pulmonary function.

Aschard H, Tobin MD, Hancock DB, ..., London SJ, Kraft P

Int J Epidemiol 46 (3) 894-904 [2017-06-01; online 2017-01-14]

Affiliated researcher

PubMed DOI Crossref

Diffusion of lipids and GPI-anchored proteins in actin-free plasma membrane vesicles measured by STED-FCS.

Schneider F, Waithe D, Clausen MP, ..., Eggeling C, Sezgin E

Mol. Biol. Cell 28 (11) 1507-1518 [2017-06-01; online 2017-04-12]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Validation of an enzyme-linked immunosorbent assay for the quantification of citrullinated histone H3 as a marker for neutrophil extracellular traps in human plasma.

Thålin C, Daleskog M, Göransson SP, ..., Wallén H, Demers M

Immunol. Res. 65 (3) 706-712 [2017-06-00; online 2017-02-06]

Affiliated researcher

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Tumoral cubilin is a predictive marker for treatment of renal cancer patients with sunitinib and sorafenib.

Niinivirta M, Enblad G, Edqvist PH, ..., Dragomir A, Ullenhag GJ

J. Cancer Res. Clin. Oncol. 143 (6) 961-970 [2017-06-00; online 2017-03-04]

Affiliated researcher

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The mystery of membrane organization: composition, regulation and roles of lipid rafts.

Sezgin E, Levental I, Mayor S, Eggeling C

Nat. Rev. Mol. Cell Biol. 18 (6) 361-374 [2017-06-00; online 2017-03-30]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Structural Variation Detection with Read Pair Information: An Improved Null Hypothesis Reduces Bias.

Sahlin K, Frånberg M, Arvestad L

J. Comput. Biol. 24 (6) 581-589 [2017-06-00; online 2016-09-28]

Affiliated researcher Kristoffer Sahlin SciLifeLab Fellow

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Role of interferons in SLE.

Bengtsson AA, Rönnblom L

Best Pract Res Clin Rheumatol 31 (3) 415-428 [2017-06-00; online 2017-11-03]

Affiliated researcher

DOI Crossref

Results of a collaborative study on DNA identification of aged bone samples

Vanek D, Budowle B, Dubska-Votrubova J, ..., Vella J, Zander J

Croat Med J 58 (3) 203-213 [2017-06-00; online 2017-06-00]

Affiliated researcher

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Ranking and characterization of established BMI and lipid associated loci as candidates for gene-environment interactions.

Shungin D, Deng WQ, Varga TV, ..., Paré G, Franks PW

PLoS Genet 13 (6) e1006812 [2017-06-00; online 2017-06-14]

Affiliated researcher

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Quality Matters: 2016 Annual Conference of the National Infrastructures for Biobanking.

Doucet M, Becker KF, Björkman J, ..., Zatloukal K, Dagher G

Biopreserv Biobank 15 (3) 270-276 [2017-06-00; online 2016-12-19]

Affiliated researcher

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Multirate method for co-simulation of electrical-chemical systems in multiscale modeling.

Brocke E, Djurfeldt M, Bhalla US, Kotaleski JH, Hanke M

J Comput Neurosci 42 (3) 245-256 [2017-06-00; online 2017-04-07]

Affiliated researcher

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Mixing of water masses caused by a drifting iceberg affects bacterial activity, community composition and substrate utilization capability in the Southern Ocean.

Dinasquet J, Richert I, Logares R, ..., Bertilsson S, Riemann L

Environ. Microbiol. 19 (6) 2453-2467 [2017-06-00; online 2017-05-26]

Affiliated researcher

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MicroBubble activated acoustic cell sorting.

Faridi MA, Ramachandraiah H, Iranmanesh I, ..., Wiklund M, Russom A

Biomed Microdevices 19 (2) 23 [2017-06-00; online 2017-04-05]

Affiliated researcher

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Metastasis detection from whole slide images using local features and random forests.

Valkonen M, Kartasalo K, Liimatainen K, ..., Latonen L, Ruusuvuori P

Cytometry A 91 (6) 555-565 [2017-06-00; online 2017-04-20]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Lower inflammatory markers in women with antenatal depression brings the M1/M2 balance into focus from a new direction.

Edvinsson Å, Bränn E, Hellgren C, ..., Cunningham JL, Sundström-Poromaa I

Psychoneuroendocrinology 80 (-) 15-25 [2017-06-00; online 2017-02-28]

Affiliated researcher

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Low interleukin-2 concentration favors generation of early memory T cells over effector phenotypes during chimeric antigen receptor T-cell expansion.

Kaartinen T, Luostarinen A, Maliniemi P, ..., Ylä-Herttuala S, Korhonen M

Cytotherapy 19 (6) 689-702 [2017-06-00; online 2017-04-11]

Affiliated researcher

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Large-scale analyses of common and rare variants identify 12 new loci associated with atrial fibrillation.

Christophersen IE, Rienstra M, Roselli C, ..., Ellinor PT, AFGen Consortium

Nat. Genet. 49 (6) 946-952 [2017-06-00; online 2017-04-17]

Affiliated researcher

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LASSIM-A network inference toolbox for genome-wide mechanistic modeling.

Magnusson R, Mariotti GP, Köpsén M, ..., Tjärnberg A, Gustafsson M

PLoS Comput Biol 13 (6) e1005608 [2017-06-00; online 2017-06-22]

Affiliated researcher

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Interactions between CXCR4 and CXCL12 promote cell migration and invasion of canine hemangiosarcoma.

Im KS, Graef AJ, Breen M, ..., Modiano JF, Kim JH

Vet Comp Oncol 15 (2) 315-327 [2017-06-00; online 2015-09-03]

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Global survey of the immunomodulatory potential of common drugs.

Vladimer GI, Snijder B, Krall N, ..., Jäger U, Superti-Furga G

Nat. Chem. Biol. 13 (6) 681-690 [2017-06-00; online 2017-04-24]

Affiliated researcher

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Genome sequencing and population genomic analyses provide insights into the adaptive landscape of silver birch.

Salojärvi J, Smolander OP, Nieminen K, ..., Helariutta Y, Kangasjärvi J

Nat. Genet. 49 (6) 904-912 [2017-06-00; online 2017-05-08]

Affiliated researcher

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Gene flow, ancient polymorphism, and ecological adaptation shape the genomic landscape of divergence among Darwin's finches.

Han F, Lamichhaney S, Grant BR, ..., Andersson L, Webster MT

Genome Res. 27 (6) 1004-1015 [2017-06-00; online 2017-04-25]

Affiliated researcher

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Fast and general tests of genetic interaction for genome-wide association studies.

Frånberg M, Strawbridge RJ, Hamsten A, ..., Lagergren J, Sennblad B

PLoS Comput Biol 13 (6) e1005556 [2017-06-00; online 2017-06-06]

Affiliated researcher

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Effects of beaver impoundments on dissolved organic matter quality and biodegradability in boreal riverine systems

Catalán N, Herrero Ortega S, Gröntoft H, ..., Bishop K, Bravo AG

Hydrobiologia 793 (1) 135-148 [2017-06-00; online 2016-05-23]

Affiliated researcher

DOI Crossref

Copernicus, a hybrid dataflow and peer-to-peer scientific computing platform for efficient large-scale ensemble sampling

Pouya I, Pronk S, Lundborg M, Lindahl E

Future Generation Computer Systems 71 (-) 18-31 [2017-06-00; online 2017-06-00]

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Comparative proteomics reveals signature metabolisms of exponentially growing and stationary phase marine bacteria.

Muthusamy S, Lundin D, Mamede Branca RM, ..., Lehtiö J, Pinhassi J

Environ. Microbiol. 19 (6) 2301-2319 [2017-06-00; online 2017-04-03]

Affiliated researcher

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Building a bio-based industry in the Middle East through harnessing the potential of the Red Sea biodiversity.

Nielsen J, Archer J, Essack M, ..., Gojobori T, Mijakovic I

Appl. Microbiol. Biotechnol. 101 (12) 4837-4851 [2017-06-00; online 2017-05-20]

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Association analysis of KIT, MITF, and PAX3 variants with white markings in Spanish horses.

Negro S, Imsland F, Valera M, ..., Solé M, Andersson L

Anim. Genet. 48 (3) 349-352 [2017-06-00; online 2017-01-13]

Affiliated researcher

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An automated method measures variability in P-glycoprotein and ABCG2 densities across brain regions and brain matter.

Kannan P, Schain M, Kretzschmar WW, ..., Hall MD, Mulder J

J. Cereb. Blood Flow Metab. 37 (6) 2062-2075 [2017-06-00; online 2016-01-01]

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Affinity Proteomics Exploration of Melanoma Identifies Proteins in Serum with Associations to T-Stage and Recurrence.

Byström S, Fredolini C, Edqvist PH, ..., Pontén F, Schwenk JM

Transl Oncol 10 (3) 385-395 [2017-06-00; online 2017-04-20]

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A missense variant in ITPR1 provides evidence for autosomal recessive SCA29 with asymptomatic cerebellar hypoplasia in carriers.

Klar J, Ali Z, Farooq M, ..., Baig SM, Dahl N

Eur. J. Hum. Genet. 25 (7) 848-853 [2017-06-00; online 2017-05-10]

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High-affinity recognition of the human C-reactive protein independent of phosphocholine.

Yang J, Gustavsson AL, Haraldsson M, ..., Norberg T, Baltzer L

Org. Biomol. Chem. 15 (21) 4644-4654 [2017-05-31; online 2017-05-18]

Affiliated researcher

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Expression of CD226 is associated to but not required for NK cell education.

Wagner AK, Kadri N, Snäll J, ..., Kärre K, Chambers BJ

Nat Commun 8 (1) 15627 [2017-05-31; online 2017-05-31]

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PubMed DOI Crossref

A damaged genome's transcriptional landscape through multilayered expression profiling around in situ-mapped DNA double-strand breaks.

Iannelli F, Galbiati A, Capozzo I, ..., Carninci P, d'Adda di Fagagna F

Nat Commun 8 (-) 15656 [2017-05-31; online 2017-05-31]

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PubMed DOI Crossref

The force-sensing peptide VemP employs extreme compaction and secondary structure formation to induce ribosomal stalling.

Su T, Cheng J, Sohmen D, ..., Wilson DN, Beckmann R

Elife 6 (-) - [2017-05-30; online 2017-05-30]

Affiliated researcher

PubMed DOI Crossref

Substrate and method dependent inhibition of three ABC-transporters (MDR1, BCRP, and MRP2).

Pedersen JM, Khan EK, Bergström CAS, ..., Hoogstraate J, Artursson P

Eur J Pharm Sci 103 (-) 70-76 [2017-05-30; online 2017-03-02]

Affiliated researcher

PubMed DOI Crossref

Metabolic engineering of Saccharomyces cerevisiae for production of very long chain fatty acid-derived chemicals.

Yu T, Zhou YJ, Wenning L, ..., Nielsen J, David F

Nat Commun 8 (-) 15587 [2017-05-26; online 2017-05-26]

Affiliated researcher

PubMed DOI Crossref

A subcellular map of the human proteome.

Thul PJ, Åkesson L, Wiking M, ..., Uhlén M, Lundberg E

Science (New York, N.Y.) 356 (6340) eaal3321 [2017-05-26; online 2017-05-11]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Type 2 diabetes and obesity induce similar transcriptional reprogramming in human myocytes.

Väremo L, Henriksen TI, Scheele C, ..., Pedersen BK, Nielsen J

Genome Med 9 (1) 47 [2017-05-25; online 2017-05-25]

Affiliated researcher

PubMed DOI Crossref

Piperazin-1-ylpyridazine Derivatives Are a Novel Class of Human dCTP Pyrophosphatase 1 Inhibitors.

Llona-Minguez S, Höglund A, Ghassemian A, ..., Scobie M, Helleday T

J. Med. Chem. 60 (10) 4279-4292 [2017-05-25; online 2017-05-16]

Affiliated researcher

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RNA-dependent chromatin association of transcription elongation factors and Pol II CTD kinases.

Battaglia S, Lidschreiber M, Baejen C, ..., Vos SM, Cramer P

Elife 6 (-) - [2017-05-24; online 2017-05-24]

Affiliated researcher

PubMed DOI Crossref

Absolute Quantification of Protein and mRNA Abundances Demonstrate Variability in Gene-Specific Translation Efficiency in Yeast.

Lahtvee PJ, Sánchez BJ, Smialowska A, ..., Gatto F, Nielsen J

Cell Systems 4 (5) 495-504.e5 [2017-05-24; online 2017-03-29]

Affiliated researcher

PubMed DOI Crossref

Targeted sequencing of tonsillar and base of tongue cancer and human papillomavirus positive unknown primary of the head and neck reveals prognostic effects of mutated FGFR3.

Bersani C, Sivars L, Haeggblom L, ..., Ramqvist T, Dalianis T

Oncotarget 8 (21) 35339-35350 [2017-05-23; online 2017-05-20]

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PubMed DOI Crossref

Structure of the Sac3 RNA-binding M-region in the Saccharomyces cerevisiae TREX-2 complex.

Gordon JMB, Aibara S, Stewart M

Nucleic Acids Res. 45 (9) 5577-5585 [2017-05-19; online 2017-03-24]

Affiliated researcher

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Selective Synthesis of Spirooxindoles by an Intramolecular Heck-Mizoroki Reaction.

Roy T, Brandt P, Wetzel A, ..., Sävmarker J, Larhed M

Org. Lett. 19 (10) 2738-2741 [2017-05-19; online 2017-05-04]

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Mass spectrometry based metabolomics for in vitro systems pharmacology: pitfalls, challenges, and computational solutions.

Herman S, Emami Khoonsari P, Aftab O, ..., Kultima K, Gustafsson M

Metabolomics 13 (7) 79 [2017-05-19; online 2017-05-19]

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AT

Bernhem K, Krishnan K, Bondar A, ..., Aperia A, Scott L

BMC Cardiovasc Disord 17 (1) 126 [2017-05-17; online 2017-05-17]

Affiliated researcher

PubMed DOI Crossref

ProQ3D: improved model quality assessments using deep learning.

Uziela K, Menéndez Hurtado D, Shu N, Wallner B, Elofsson A

Bioinformatics 33 (10) 1578-1580 [2017-05-15; online 2017-01-06]

Affiliated researcher

PubMed DOI Crossref

Multifractal and mechanical analysis of amorphous solid dispersions.

Adler C, Teleki A, Kuentz M

Int J Pharm 523 (1) 91-101 [2017-05-15; online 2017-03-09]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

GWAR: robust analysis and meta-analysis of genome-wide association studies.

Dimou NL, Tsirigos KD, Elofsson A, Bagos PG

Bioinformatics 33 (10) 1521-1527 [2017-05-15; online 2017-01-22]

Affiliated researcher

PubMed DOI Crossref

Spectral imaging toolbox: segmentation, hyperstack reconstruction, and batch processing of spectral images for the determination of cell and model membrane lipid order.

Aron M, Browning R, Carugo D, ..., Eggeling C, Stride E

BMC Bioinformatics 18 (1) 254 [2017-05-12; online 2017-05-12]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

BLISS is a versatile and quantitative method for genome-wide profiling of DNA double-strand breaks.

Yan WX, Mirzazadeh R, Garnerone S, ..., Bienko M, Crosetto N

Nat Commun 8 (1) 15058 [2017-05-12; online 2017-05-12]

Affiliated researcher Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Whole blood gene expression in adolescent chronic fatigue syndrome: an exploratory cross-sectional study suggesting altered B cell differentiation and survival.

Nguyen CB, Alsøe L, Lindvall JM, ..., Nilsen H, Wyller VB

J Transl Med 15 (1) 102 [2017-05-11; online 2017-05-11]

Affiliated researcher

PubMed DOI Crossref

Piecewise Structural Equation Model (SEM) Disentangles the Environmental Conditions Favoring Diatom Diazotroph Associations (DDAs) in the Western Tropical North Atlantic (WTNA).

Stenegren M, Berg C, Padilla CC, ..., Yager PL, Foster RA

Front Microbiol 8 (-) 810 [2017-05-09; online 2017-05-09]

Affiliated researcher

PubMed DOI Crossref

Phase Partitioning of GM1 and Its Bodipy-Labeled Analog Determine Their Different Binding to Cholera Toxin.

Rissanen S, Grzybek M, Orłowski A, ..., Sezgin E, Vattulainen I

Front. Physiol. 8 (-) 252 [2017-05-09; online 2017-05-09]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Spatially resolved transcriptome profiling in model plant species.

Giacomello S, Salmén F, Terebieniec BK, ..., Street NR, Lundeberg J

Nat Plants 3 (-) 17061 [2017-05-08; online 2017-05-08]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

Glial cell-line derived neurotrophic factor protects human islets from nutrient deprivation and endoplasmic reticulum stress induced apoptosis.

Abadpour S, Göpel SO, Schive SW, ..., Foss A, Scholz H

Sci Rep 7 (1) 1575 [2017-05-08; online 2017-05-08]

Affiliated researcher

PubMed DOI Crossref

Expression proteomics study to determine metallodrug targets and optimal drug combinations.

Lee RFS, Chernobrovkin A, Rutishauser D, ..., Zubarev RA, Dyson PJ

Sci Rep 7 (1) 1590 [2017-05-08; online 2017-05-08]

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Sensitive and inexpensive digital DNA analysis by microfluidic enrichment of rolling circle amplified single-molecules.

Kühnemund M, Hernández-Neuta I, Sharif MI, ..., Gijs MAM, Nilsson M

Nucleic Acids Res. 45 (8) e59 [2017-05-05; online 2017-01-13]

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Screening and Validation of Novel Biomarkers in Osteoarticular Pathologies by Comprehensive Combination of Protein Array Technologies.

Sierra-Sánchez Á, Garrido-Martín D, Lourido L, ..., Blanco F, Fuentes M

J. Proteome Res. 16 (5) 1890-1899 [2017-05-05; online 2017-04-17]

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FEELnc: a tool for long non-coding RNA annotation and its application to the dog transcriptome.

Wucher V, Legeai F, Hédan B, ..., Hitte C, Derrien T

Nucleic Acids Res. 45 (8) e57 [2017-05-05; online 2017-01-06]

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Ssb1 and Ssb2 cooperate to regulate mouse hematopoietic stem and progenitor cells by resolving replicative stress.

Shi W, Vu T, Boucher D, ..., Lane SW, Khanna KK

Blood 129 (18) 2479-2492 [2017-05-04; online 2017-03-07]

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Single-cell RNA-sequencing: The future of genome biology is now.

Picelli S

RNA Biol 14 (5) 637-650 [2017-05-04; online 2016-07-21]

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Highly sensitive and specific protein detection via combined capillary isoelectric focusing and proximity ligation.

Padhan N, Yan J, Boge A, ..., Claesson-Welsh L, Landegren U

Sci Rep 7 (1) 1490 [2017-05-04; online 2017-05-04]

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EndoC-βH1 cells display increased sensitivity to sodium palmitate when cultured in DMEM/F12 medium.

Krizhanovskii C, Kristinsson H, Elksnis A, ..., Scharfmann R, Welsh N

Islets 9 (3) e1296995 [2017-05-04; online 2017-02-28]

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Functional screening of aldehyde decarbonylases for long-chain alkane production by Saccharomyces cerevisiae.

Kang MK, Zhou YJ, Buijs NA, Nielsen J

Microb Cell Fact 16 (1) 74 [2017-05-02; online 2017-05-02]

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Colonization and Succession within the Human Gut Microbiome by Archaea, Bacteria, and Microeukaryotes during the First Year of Life.

Wampach L, Heintz-Buschart A, Hogan A, ..., de Beaufort C, Wilmes P

Front Microbiol 8 (-) 738 [2017-05-02; online 2017-05-02]

Affiliated researcher DDLS Fellow Luisa Hugerth

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Temporal Genomic Phylogeny Reconstruction Indicates a Geospatial Transmission Path of Salmonella Cerro in the United States and a Clade-Specific Loss of Hydrogen Sulfide Production.

Kovac J, Cummings KJ, Rodriguez-Rivera LD, ..., Thachil A, Wiedmann M

Front Microbiol 8 (-) 737 [2017-05-01; online 2017-05-01]

DDLS Fellow Laura Carroll

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Large-scale genome-wide analysis identifies genetic variants associated with cardiac structure and function.

Wild PS, Felix JF, Schillert A, ..., Vasan RS, Dörr M

J. Clin. Invest. 127 (5) 1798-1812 [2017-05-01; online 2017-04-10]

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Experimental strategies for imaging bioparticles with femtosecond hard X-ray pulses.

Daurer BJ, Okamoto K, Bielecki J, ..., Hajdu J, Larsson DSD

IUCrJ 4 (Pt 3) 251-262 [2017-05-01; online 2017-04-07]

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[ 11C]5-hydroxy-tryptophan PET for Assessment of Islet Mass During Progression of Type 2 Diabetes.

Carlbom L, Espes D, Lubberink M, ..., Korsgren O, Eriksson O

Diabetes 66 (5) 1286-1292 [2017-05-00; online 2017-02-28]

Olof Eriksson SciLifeLab Fellow

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Two extended haplotype blocks are associated with adaptation to high altitude habitats in East African honey bees.

Wallberg A, Schöning C, Webster MT, Hasselmann M

PLoS Genet 13 (5) e1006792 [2017-05-00; online 2017-05-25]

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Transcriptomics and methylomics of CD4-positive T cells in arsenic-exposed women.

Engström K, Wojdacz TK, Marabita F, ..., Vahter M, Broberg K

Arch. Toxicol. 91 (5) 2067-2078 [2017-05-00; online 2016-11-12]

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Time to onset of bisphosphonate-related osteonecrosis of the jaws: a multicentre retrospective cohort study.

Fung P, Bedogni G, Bedogni A, ..., GENVABO Consortium , Fedele S

Oral Dis 23 (4) 477-483 [2017-05-00; online 2017-03-06]

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The origin of novel features by changes in developmental mechanisms: ontogeny and three-dimensional microanatomy of polyodontode scales of two early osteichthyans.

Qu Q, Sanchez S, Zhu M, Blom H, Ahlberg PE

Biol Rev Camb Philos Soc 92 (2) 1189-1212 [2017-05-00; online 2016-05-19]

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Ten simple rules for surviving an interdisciplinary PhD.

Demharter S, Pearce N, Beattie K, ..., Deane CM, Knapp B

PLoS Comput Biol 13 (5) e1005512 [2017-05-00; online 2017-05-25]

DDLS Fellow Nicholas Pearce

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Stress sensitivity of a fission yeast strain lacking histidine kinases is rescued by the ectopic expression of Chk1 from Candida albicans.

Maksimov V, Wäneskog M, Rodriguez A, Bjerling P

Curr. Genet. 63 (2) 343-357 [2017-05-00; online 2016-09-09]

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Safe and Effective Sarcoma Therapy through Bispecific Targeting of EGFR and uPAR.

Borgatti A, Koopmeiners JS, Sarver AL, ..., Modiano JF, Vallera DA

Mol. Cancer Ther. 16 (5) 956-965 [2017-05-00; online 2017-02-13]

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Recent Advances in Human Genetics and Epigenetics of Adiposity: Pathway to Precision Medicine?

Fall T, Mendelson M, Speliotes EK

Gastroenterology 152 (7) 1695-1706 [2017-05-00; online 2017-02-15]

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Partial-occupancy binders identified by the Pan-Dataset Density Analysis method offer new chemical opportunities and reveal cryptic binding sites.

Pearce NM, Bradley AR, Krojer T, ..., Deane CM, von Delft F

Struct Dyn 4 (3) 032104 [2017-05-00; online 2017-02-28]

DDLS Fellow Nicholas Pearce

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Monitoring therapy responses at the leukemic subclone level by ultra-deep amplicon resequencing in acute myeloid leukemia.

Ojamies PN, Kontro M, Edgren H, ..., Wolf M, Kallioniemi O

Leukemia 31 (5) 1048-1058 [2017-05-00; online 2016-10-31]

Affiliated researcher

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Loss of chromosome Y (LOY) in blood cells is associated with increased risk for disease and mortality in aging men.

Forsberg LA

Hum. Genet. 136 (5) 657-663 [2017-05-00; online 2017-04-19]

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Inflammatory markers in late pregnancy in association with postpartum depression-A nested case-control study.

Bränn E, Papadopoulos F, Fransson E, ..., Sundström-Poromaa I, Skalkidou A

Psychoneuroendocrinology 79 (-) 146-159 [2017-05-00; online 2017-02-28]

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Further evidence for specific IFIH1 mutation as a cause of Singleton-Merten syndrome with phenotypic heterogeneity.

Pettersson M, Bergendal B, Norderyd J, ..., Nordgren A, Lindstrand A

Am. J. Med. Genet. A 173 (5) 1396-1399 [2017-05-00; online 2017-03-20]

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Evolutionary forces affecting synonymous variations in plant genomes.

Clément Y, Sarah G, Holtz Y, ..., David J, Glémin S

PLoS Genet 13 (5) e1006799 [2017-05-00; online 2017-05-22]

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Enhanced sensitivity to glucocorticoids in cytarabine-resistant AML.

Malani D, Murumägi A, Yadav B, ..., Aittokallio T, Kallioniemi O

Leukemia 31 (5) 1187-1195 [2017-05-00; online 2016-11-11]

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Engineering central metabolism - a grand challenge for plant biologists.

Sweetlove LJ, Nielsen J, Fernie AR

Plant J. 90 (4) 749-763 [2017-05-00; online 2017-03-11]

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Development of cyclic shedding teeth from semi-shedding teeth: the inner dental arcade of the stem osteichthyan

Chen D, Blom H, Sanchez S, ..., Märss T, Ahlberg PE

R Soc Open Sci 4 (5) 161084 [2017-05-00; online 2017-05-17]

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Covariation of Peptide Abundances Accurately Reflects Protein Concentration Differences.

Zhang B, Pirmoradian M, Zubarev R, Käll L

Mol. Cell Proteomics 16 (5) 936-948 [2017-05-00; online 2017-03-16]

Affiliated researcher

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Combination of short-read, long-read, and optical mapping assemblies reveals large-scale tandem repeat arrays with population genetic implications.

Weissensteiner MH, Pang AWC, Bunikis I, ..., Suh A, Wolf JBW

Genome Res. 27 (5) 697-708 [2017-05-00; online 2017-03-30]

Affiliated researcher

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Biobased production of alkanes and alkenes through metabolic engineering of microorganisms.

Kang MK, Nielsen J

J. Ind. Microbiol. Biotechnol. 44 (4-5) 613-622 [2017-05-00; online 2016-08-26]

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An intra-droplet particle switch for droplet microfluidics using bulk acoustic waves.

Fornell A, Ohlin M, Garofalo F, Nilsson J, Tenje M

Biomicrofluidics 11 (3) 031101 [2017-05-00; online 2017-05-26]

Affiliated researcher

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1000 Genomes-based meta-analysis identifies 10 novel loci for kidney function.

Gorski M, van der Most PJ, Teumer A, ..., Böger CA, Fuchsberger C

Sci Rep 7 (-) 45040 [2017-04-28; online 2017-04-28]

Affiliated researcher

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Tumors overexpressing RNF168 show altered DNA repair and responses to genotoxic treatments, genomic instability and resistance to proteotoxic stress.

Chroma K, Mistrik M, Moudry P, ..., Kramara J, Bartek J

Oncogene 36 (17) 2405-2422 [2017-04-27; online 2016-11-14]

Affiliated researcher

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High-avidity IgA protects the intestine by enchaining growing bacteria.

Moor K, Diard M, Sellin ME, ..., Hardt WD, Slack E

Nature 544 (7651) 498-502 [2017-04-27; online 2017-04-12]

Affiliated researcher Mikael Sellin SciLifeLab Fellow

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Combined lipidomic and proteomic analysis of isolated human islets exposed to palmitate reveals time-dependent changes in insulin secretion and lipid metabolism.

Roomp K, Kristinsson H, Schvartz D, ..., Sanchez JC, Bergsten P

PLoS ONE 12 (4) e0176391 [2017-04-27; online 2017-04-27]

Affiliated researcher

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Genome-wide meta-analysis of 241,258 adults accounting for smoking behaviour identifies novel loci for obesity traits.

Justice AE, Winkler TW, Feitosa MF, ..., North KE, Cupples LA

Nat Commun 8 (-) 14977 [2017-04-26; online 2017-04-26]

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Recombinant TgHSP70 Immunization Protects against Toxoplasma gondii Brain Cyst Formation by Enhancing Inducible Nitric Oxide Expression

Czarnewski P, Araújo ECB, Oliveira MC, Mineo TWP, Silva NM

Front. Cell. Infect. Microbiol. 7 (-) - [2017-04-25; online 2017-04-25]

Affiliated researcher

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Parallel adaptive evolution of geographically distant herring populations on both sides of the North Atlantic Ocean.

Lamichhaney S, Fuentes-Pardo AP, Rafati N, ..., Ruzzante DE, Andersson L

Proc. Natl. Acad. Sci. U.S.A. 114 (17) E3452-E3461 [2017-04-25; online 2017-04-07]

Affiliated researcher

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A multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density.

Pearce NM, Krojer T, Bradley AR, ..., Deane CM, von Delft F

Nat Commun 8 (-) 15123 [2017-04-24; online 2017-04-24]

DDLS Fellow Nicholas Pearce

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A large-scale benchmark of gene prioritization methods.

Guala D, Sonnhammer ELL

Sci Rep 7 (-) 46598 [2017-04-21; online 2017-04-21]

Affiliated researcher

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Respiratory chain complex III deficiency due to mutated BCS1L: a novel phenotype with encephalomyopathy, partially phenocopied in a Bcs1l mutant mouse model.

Tegelberg S, Tomašić N, Kallijärvi J, ..., Eklund EA, Fellman V

Orphanet J Rare Dis 12 (1) 73 [2017-04-20; online 2017-04-20]

Affiliated researcher

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Pharmacological targeting of peptidylarginine deiminase 4 prevents cancer-associated kidney injury in mice.

Cedervall J, Dragomir A, Saupe F, ..., Larsson A, Olsson AK

Oncoimmunology 6 (8) e1320009 [2017-04-20; online 2017-04-20]

Affiliated researcher

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Persistent Effects of Developmental Exposure to 17α-Ethinylestradiol on the Zebrafish (

Porseryd T, Volkova K, Reyhanian Caspillo N, ..., Dinnetz P, Porsh Hällström I

Front Behav Neurosci 11 (-) 69 [2017-04-20; online 2017-04-20]

Affiliated researcher

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Formal Definitions of Unbounded Evolution and Innovation Reveal Universal Mechanisms for Open-Ended Evolution in Dynamical Systems.

Adams A, Zenil H, Davies PCW, Walker SI

Sci Rep 7 (1) 997 [2017-04-20; online 2017-04-20]

Affiliated researcher

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Does Proton Conduction in the Voltage-Gated H+ Channel hHv1 Involve Grotthuss-Like Hopping via Acidic Residues?

van Keulen SC, Gianti E, Carnevale V, ..., Rothlisberger U, Delemotte L

J Phys Chem B 121 (15) 3340-3351 [2017-04-20; online 2016-11-18]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

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AS3MT-mediated tolerance to arsenic evolved by multiple independent horizontal gene transfers from bacteria to eukaryotes.

Palmgren M, Engström K, Hallström BM, ..., Vahter M, Broberg K

PLoS ONE 12 (4) e0175422 [2017-04-20; online 2017-04-20]

Affiliated researcher

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Small molecule inhibitor screening identifified HSP90 inhibitor 17-AAG as potential therapeutic agent for gallbladder cancer.

Weber H, Valbuena JR, Barbhuiya MA, ..., Leal-Rojas P, Roa JC

Oncotarget 8 (16) 26169-26184 [2017-04-18; online 2017-04-17]

Affiliated researcher

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Histology-Compatible MALDI Mass Spectrometry Based Imaging of Neuronal Lipids for Subsequent Immunofluorescent Staining.

Kaya I, Michno W, Brinet D, ..., Zetterberg H, Hanrieder J

Anal. Chem. 89 (8) 4685-4694 [2017-04-18; online 2017-04-06]

SciLifeLab Fellow Wojciech Michno

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Oriented clonal cell dynamics enables accurate growth and shaping of vertebrate cartilage.

Kaucka M, Zikmund T, Tesarova M, ..., Fried K, Adameyko I

Elife 6 (-) - [2017-04-17; online 2017-04-17]

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Possible Interaction Between Cigarette Smoking and HLA-DRB1 Variation in the Risk of Follicular Lymphoma.

Baecklund F, Foo JN, Askling J, ..., Padyukov L, Smedby KE

Am. J. Epidemiol. 185 (8) 681-687 [2017-04-15; online 2017-04-04]

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Improved orthology inference with Hieranoid 2.

Kaduk M, Sonnhammer E

Bioinformatics 33 (8) 1154-1159 [2017-04-15; online 2017-01-18]

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Adaptation to infectious disease exposure in indigenous Southern African populations.

Owers KA, Sjödin P, Schlebusch CM, ..., Soodyall H, Jakobsson M

Proc. Biol. Sci. 284 (1852) - [2017-04-12; online 2017-04-07]

Affiliated researcher

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The transcription factor MAFK induces EMT and malignant progression of triple-negative breast cancer cells through its target GPNMB.

Okita Y, Kimura M, Xie R, ..., Heldin CH, Kato M

Sci Signal 10 (474) - [2017-04-11; online 2017-04-11]

Affiliated researcher

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Serglycin as a potential biomarker for glioma: association of serglycin expression, extent of mast cell recruitment and glioblastoma progression.

Roy A, Attarha S, Weishaupt H, ..., Pontén F, Tchougounova E

Oncotarget 8 (15) 24815-24827 [2017-04-11; online 2017-04-28]

Affiliated researcher

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Direct evidence for a polygenic etiology in familial multiple myeloma.

Halvarsson BM, Wihlborg AK, Ali M, ..., Hansson M, Nilsson B

Blood Adv 1 (10) 619-623 [2017-04-11; online 2017-04-07]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing.

Raine A, Manlig E, Wahlberg P, Syvänen AC, Nordlund J

Nucleic Acids Res. 45 (6) e36 [2017-04-07; online 2016-12-03]

Affiliated researcher

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Regio- and Stereoselective Synthesis of Functionalized Cyclopentene Derivatives via Mizoroki-Heck Reactions.

Wetzel A, Bergman J, Brandt P, Larhed M, Brånalt J

Org. Lett. 19 (7) 1602-1605 [2017-04-07; online 2017-03-14]

Affiliated researcher

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Genome-wide identification of physically clustered genes suggests chromatin-level co-regulation in male reproductive development in Arabidopsis thaliana.

Reimegård J, Kundu S, Pendle A, ..., Sundström JF, Emanuelsson O

Nucleic Acids Res. 45 (6) 3253-3265 [2017-04-07; online 2017-02-09]

Affiliated researcher

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A Fluorophore Fusion Construct of Human Profilin I with Non-Compromised Poly(L-Proline) Binding Capacity Suitable for Imaging.

Nejedla M, Li Z, Masser AE, ..., Friedländer MR, Karlsson R

J. Mol. Biol. 429 (7) 964-976 [2017-04-07; online 2017-01-08]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Quantitative humoral profiling of the HIV-1 proteome in elite controllers and patients with very long-term efficient antiretroviral therapy.

Zhang W, Morshed MM, Noyan K, ..., Sönnerborg A, Neogi U

Sci Rep 7 (1) 666 [2017-04-06; online 2017-04-06]

Affiliated researcher

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Interplay between periodic stimulation and GABAergic inhibition in striatal network oscillations.

Belić JJ, Kumar A, Hellgren Kotaleski J

PLoS ONE 12 (4) e0175135 [2017-04-06; online 2017-04-06]

Affiliated researcher

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Genome-wide Analysis of RNA Polymerase II Termination at Protein-Coding Genes.

Baejen C, Andreani J, Torkler P, ..., Söding J, Cramer P

Mol. Cell 66 (1) 38-49.e6 [2017-04-06; online 2017-03-16]

Affiliated researcher

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Quantum dots modulate intracellular Ca

Yin H, Fontana JM, Solandt J, ..., Brismar H, Fu Y

Int J Nanomedicine 12 (-) 2781-2792 [2017-04-05; online 2017-04-05]

Affiliated researcher

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Laurdan and Di-4-ANEPPDHQ probe different properties of the membrane.

Amaro M, Reina F, Hof M, Eggeling C, Sezgin E

J. Phys. D: Appl. Phys. 50 (13) 134004 [2017-04-05; online 2017-03-07]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

dUTPase inhibition augments replication defects of 5-Fluorouracil.

Hagenkort A, Paulin CBJ, Desroses M, ..., Scobie M, Helleday T

Oncotarget 8 (14) 23713-23726 [2017-04-04; online 2017-04-21]

Affiliated researcher

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Optimizing Analytical Depth and Cost Efficiency of IEF-LC/MS Proteomics.

Kifer I, Branca RM, Ben-Dor A, ..., Lehtio J, Yakhini Z

IEEE/ACM Trans Comput Biol Bioinform 14 (2) 272-281 [2017-04-04; online 2017-04-04]

Affiliated researcher

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Flow Cytometric Measurement of Blood Cells with BCR-ABL1 Fusion Protein in Chronic Myeloid Leukemia.

Löf L, Arngården L, Olsson-Strömberg U, ..., Landegren U, Kamali-Moghaddam M

Sci Rep 7 (1) 623 [2017-04-04; online 2017-04-04]

Affiliated researcher

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Sulfonimidamides in Medicinal and Agricultural Chemistry.

Chinthakindi PK, Naicker T, Thota N, ..., Kruger HG, Arvidsson PI

Angew. Chem. Int. Ed. Engl. 56 (15) 4100-4109 [2017-04-03; online 2017-02-23]

Affiliated researcher

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Global analysis of biosynthetic gene clusters reveals vast potential of secondary metabolite production in Penicillium species.

Nielsen JC, Grijseels S, Prigent S, ..., Workman M, Nielsen J

Nat. Microbiol 2 (-) 17044 [2017-04-03; online 2017-04-03]

Affiliated researcher

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Somatic Ephrin Receptor Mutations Are Associated with Metastasis in Primary Colorectal Cancer.

Mathot L, Kundu S, Ljungström V, ..., Nilsson M, Sjöblom T

Cancer Res. 77 (7) 1730-1740 [2017-04-01; online 2017-01-20]

Affiliated researcher

PubMed DOI Crossref

Menopausal hormone therapy and the risk of esophageal and gastric cancer.

Brusselaers N, Maret-Ouda J, Konings P, El-Serag HB, Lagergren J

Int. J. Cancer 140 (7) 1693-1699 [2017-04-01; online 2017-01-06]

Affiliated researcher

PubMed DOI Crossref

Membrane-Depolarizing Channel Blockers Induce Selective Glioma Cell Death by Impairing Nutrient Transport and Unfolded Protein/Amino Acid Responses.

Niklasson M, Maddalo G, Sramkova Z, ..., Enger PØ, Andäng M

Cancer Res. 77 (7) 1741-1752 [2017-04-01; online 2017-01-13]

Affiliated researcher

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Interactions of Freshwater Cyanobacteria with Bacterial Antagonists.

Osman OA, Beier S, Grabherr M, Bertilsson S

Appl. Environ. Microbiol. 83 (7) - [2017-04-01; online 2017-03-17]

Affiliated researcher

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Discrimination of pancreatic cancer and pancreatitis by LC-MS metabolomics.

Lindahl A, Heuchel R, Forshed J, ..., Löhr M, Nordström A

Metabolomics 13 (5) 61 [2017-04-01; online 2017-04-01]

Affiliated researcher

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A Magnetic Nanobead-Based Read-Out Procedure for Rapid Detection of DNA Molecules

de la Torre TZG, Herthnek D, Strømme M

j nanosci nanotechnol 17 (4) 2861-2864 [2017-04-01; online 2017-04-01]

Affiliated researcher

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The evolution of Sex-linked barring alleles in chickens involves both regulatory and coding changes in CDKN2A.

Schwochow Thalmann D, Ring H, Sundström E, ..., Tixier-Boichard M, Andersson L

PLoS Genet 13 (4) e1006665 [2017-04-00; online 2017-04-07]

Affiliated researcher

PubMed DOI Crossref

Survey of 800+ data sets from human tissue and body fluid reveals xenomiRs are likely artifacts.

Kang W, Bang-Berthelsen CH, Holm A, ..., Estivill X, Friedländer MR

RNA 23 (4) 433-445 [2017-04-00; online 2017-01-06]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Sequence dependency of canonical base pair opening in the DNA double helix.

Lindahl V, Villa A, Hess B

PLoS Comput Biol 13 (4) e1005463 [2017-04-00; online 2017-04-03]

Affiliated researcher

DOI Crossref

Sensitive magnetic biodetection using magnetic multi-core nanoparticles and RCA coils

Ahrentorp F, Blomgren J, Jonasson C, ..., Strømme M, Johansson C

Journal of Magnetism and Magnetic Materials 427 (-) 14-18 [2017-04-00; online 2017-04-00]

Affiliated researcher

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Redesign of water networks for efficient biocatalysis.

Fink MJ, Syrén PO

Curr Opin Chem Biol 37 (-) 107-114 [2017-04-00; online 2017-03-05]

Affiliated researcher

PubMed DOI Crossref

Prediction and Prevention of Parasitic Diseases Using a Landscape Genomics Framework.

Schwabl P, Llewellyn MS, Landguth EL, ..., Ocaña S, Grijalva MJ

Trends Parasitol. 33 (4) 264-275 [2017-04-00; online 2016-11-16]

Affiliated researcher

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Predicting Severity of Disease-Causing Variants.

Niroula A, Vihinen M

Hum. Mutat. 38 (4) 357-364 [2017-04-00; online 2017-01-24]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Mapping of 79 loci for 83 plasma protein biomarkers in cardiovascular disease.

Folkersen L, Fauman E, Sabater-Lleal M, ..., Hamsten A, Mälarstig A

PLoS Genet 13 (4) e1006706 [2017-04-00; online 2017-04-03]

Affiliated researcher

PubMed DOI Crossref

Human behavioral complexity peaks at age 25.

Gauvrit N, Zenil H, Soler-Toscano F, Delahaye JP, Brugger P

PLoS Comput Biol 13 (4) e1005408 [2017-04-00; online 2017-04-13]

Affiliated researcher

PubMed DOI Crossref

Higher Nevus Count Exhibits a Distinct DNA Methylation Signature in Healthy Human Skin: Implications for Melanoma.

Roos L, Sandling JK, Bell CG, ..., Bataille V, Bell JT

J. Invest. Dermatol. 137 (4) 910-920 [2017-04-00; online 2016-12-18]

Affiliated researcher

PubMed DOI Crossref

Genomic analysis reveals the presence of a class D beta-lactamase with broad substrate specificity in animal bite associated Capnocytophaga species.

Zangenah S, Andersson AF, Özenci V, Bergman P

Eur. J. Clin. Microbiol. Infect. Dis. 36 (4) 657-662 [2017-04-00; online 2016-12-01]

Affiliated researcher

PubMed DOI Crossref

Genome-wide physical activity interactions in adiposity - A meta-analysis of 200,452 adults.

Graff M, Scott RA, Justice AE, ..., Loos RJF, Kilpeläinen TO

PLoS Genet 13 (4) e1006528 [2017-04-00; online 2017-04-27]

Affiliated researcher

PubMed DOI Crossref

Genome-Wide Association and Replication Study of Hepatotoxicity Induced by Antiretrovirals Alone or with Concomitant Anti-Tuberculosis Drugs.

Petros Z, Lee MT, Takahashi A, ..., Kubo M, Aklillu E

OMICS 21 (4) 207-216 [2017-04-00; online 2017-04-08]

Affiliated researcher

PubMed DOI Crossref

Genetic variants in the promoter region of the calcium-sensing receptor gene are associated with its down-regulation in neuroblastic tumors.

Masvidal L, Iniesta R, García M, ..., Mora J, de Torres C

Mol. Carcinog. 56 (4) 1281-1289 [2017-04-00; online 2016-11-24]

Affiliated researcher

PubMed DOI Crossref

Gene expression profiles in preterm infants on continuous long‑term oxygen therapy suggest reduced oxidative stress‑dependent signaling during hypoxia.

Kalikstad B, Kultima HG, Andersstuen TK, Klungland A, Isaksson A

Mol Med Rep 15 (4) 1513-1526 [2017-04-00; online 2017-02-08]

Affiliated researcher

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Frequent low-level mutations of protein kinase D2 in angiolipoma.

Hofvander J, Arbajian E, Stenkula KG, ..., Hornick JL, Mertens F

J. Pathol. 241 (5) 578-582 [2017-04-00; online 2017-02-27]

Affiliated researcher

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FZD

Hot B, Valnohova J, Arthofer E, ..., Mulder J, Schulte G

Cell. Signal. 32 (-) 93-103 [2017-04-00; online 2017-01-24]

Affiliated researcher

PubMed DOI Crossref

Expanding the product portfolio of fungal type I fatty acid synthases.

Zhu Z, Zhou YJ, Krivoruchko A, ..., Zhao ZK, Nielsen J

Nat. Chem. Biol. 13 (4) 360-362 [2017-04-00; online 2017-02-20]

Affiliated researcher

PubMed DOI Crossref

Epigenome-wide DNA methylation study of IgE concentration in relation to self-reported allergies.

Ek WE, Ahsan M, Rask-Andersen M, ..., Gyllensten U, Johansson Å

Epigenomics 9 (4) 407-418 [2017-04-00; online 2017-03-21]

Affiliated researcher

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Automated Line-Based Sequential Sampling and Modeling Algorithm for EMC Near-Field Scanning

Singh P, Claeys T, Vandenbosch GAE, Pissoort D

IEEE Trans. Electromagn. Compat. 59 (2) 704-709 [2017-04-00; online 2017-04-00]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Association of Liver Injury From Specific Drugs, or Groups of Drugs, With Polymorphisms in HLA and Other Genes in a Genome-Wide Association Study.

Nicoletti P, Aithal GP, Bjornsson ES, ..., Daly AK, International Drug-Induced Liver Injury Consortium, Drug-Induced Liver Injury Network Investigators, and International Serious Adverse Events Consortium

Gastroenterology 152 (5) 1078-1089 [2017-04-00; online 2016-12-30]

Affiliated researcher

DOI Crossref

Antibiotic resistance in the food supply chain: where can sequencing and metagenomics aid risk assessment?

Bengtsson-Palme J

Current Opinion in Food Science 14 (-) 66-71 [2017-04-00; online 2017-04-00]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Analysis of FOXP3

Schmidt A, Rieger CC, Venigalla RK, ..., Krammer PH, Kuhn A

Immunol. Res. 65 (2) 551-563 [2017-04-00; online 2017-02-23]

Affiliated researcher

PubMed DOI Crossref

Alterations in Multiple Lifestyle Factors in Subjects with the Metabolic Syndrome Independently of Obesity.

Roos V, Elmståhl S, Ingelsson E, ..., Ärnlöv J, Lind L

Metab Syndr Relat Disord 15 (3) 118-123 [2017-04-00; online 2017-02-16]

Affiliated researcher

PubMed DOI Crossref

AUP1 (Ancient Ubiquitous Protein 1): A Molecular Link Between Hepatic Lipid Mobilization and VLDL Secretion.

Mardinoglu A, Borén J

Arterioscler. Thromb. Vasc. Biol. 37 (4) 609-610 [2017-04-00; online 2017-03-24]

Adil Mardinoglu SciLifeLab Fellow

DOI Crossref

A sequential sampling strategy for adaptive classification of computationally expensive data

Singh P, Herten Jvd, Deschrijver D, Couckuyt I, Dhaene T

Struct Multidisc Optim 55 (4) 1425-1438 [2017-04-00; online 2016-09-22]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

A Large Inversion Involving GNAS Exon A/B and All Exons Encoding Gsα Is Associated With Autosomal Dominant Pseudohypoparathyroidism Type Ib (PHP1B).

Grigelioniene G, Nevalainen PI, Reyes M, ..., Mäkitie O, Jüppner H

J. Bone Miner. Res. 32 (4) 776-783 [2017-04-00; online 2017-02-24]

Affiliated researcher

PubMed DOI Crossref

Electroformation of Giant Unilamellar Vesicles on Stainless Steel Electrodes.

Pereno V, Carugo D, Bau L, ..., Eggeling C, Stride E

ACS Omega 2 (3) 994-1002 [2017-03-31; online 2017-03-16]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Improvement of identification methods for honeybee specific Lactic Acid Bacteria; future approaches.

Lamei S, Hu YO, Olofsson TC, ..., Forsgren E, Vásquez A

PLoS ONE 12 (3) e0174614 [2017-03-27; online 2017-03-27]

Affiliated researcher

PubMed DOI Crossref

Potential for hydrogen-oxidizing chemolithoautotrophic and diazotrophic populations to initiate biofilm formation in oligotrophic, deep terrestrial subsurface waters.

Wu X, Pedersen K, Edlund J, ..., Bertilsson S, Dopson M

Microbiome 5 (1) 37 [2017-03-23; online 2017-03-23]

Affiliated researcher

PubMed DOI Crossref

NEArender: an R package for functional interpretation of 'omics' data via network enrichment analysis.

Jeggari A, Alexeyenko A

BMC Bioinformatics 18 (Suppl 5) 118 [2017-03-23; online 2017-03-23]

Affiliated researcher

PubMed DOI Crossref

Modeling and Targeting MYC Genes in Childhood Brain Tumors.

Hutter S, Bolin S, Weishaupt H, Swartling FJ

Genes (Basel) 8 (4) - [2017-03-23; online 2017-03-23]

Affiliated researcher

PubMed DOI Crossref

A Preliminary Report: Radical Surgery and Stem Cell Transplantation for the Treatment of Patients With Pancreatic Cancer.

Omazic B, Ayoglu B, Löhr M, ..., Maeurer MJ, Ringden O

J. Immunother. - (-) - [2017-03-23; online 2017-03-23]

Affiliated researcher

PubMed DOI Crossref

Quantification of HER2 and estrogen receptor heterogeneity in breast cancer by single-molecule RNA fluorescence in situ hybridization.

Annaratone L, Simonetti M, Wernersson E, ..., Sapino A, Crosetto N

Oncotarget 8 (12) 18680-18698 [2017-03-21; online 2017-04-21]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Helicobacter pylori eradication in the Swedish population.

Doorakkers E, Lagergren J, Gajulapuri VK, ..., Engstrand L, Brusselaers N

Scand. J. Gastroenterol. 52 (6-7) 678-685 [2017-03-21; online 2017-03-21]

Affiliated researcher

PubMed DOI Crossref

Electrochemical Genetic Profiling of Single Cancer Cells.

Acero Sánchez JL, Joda H, Henry OY, ..., Latta D, O'Sullivan CK

Anal. Chem. 89 (6) 3378-3385 [2017-03-21; online 2017-02-28]

Affiliated researcher

PubMed DOI Crossref

Analysis of spatial heterogeneity in normal epithelium and preneoplastic alterations in mouse prostate tumor models.

Valkonen M, Ruusuvuori P, Kartasalo K, ..., Visakorpi T, Latonen L

Sci Rep 7 (-) 44831 [2017-03-20; online 2017-03-20]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Reversion of antibiotic resistance in Mycobacterium tuberculosis by spiroisoxazoline SMARt-420.

Blondiaux N, Moune M, Desroses M, ..., Willand N, Baulard AR

Science 355 (6330) 1206-1211 [2017-03-17; online 2017-03-16]

Affiliated researcher

PubMed DOI Crossref

Proteogenomics produces comprehensive and highly accurate protein-coding gene annotation in a complete genome assembly of Malassezia sympodialis.

Zhu Y, Engström PG, Tellgren-Roth C, ..., Scheynius A, Lehtiö J

Nucleic Acids Res. 45 (5) 2629-2643 [2017-03-17; online 2017-01-20]

Affiliated researcher

PubMed DOI Crossref

PATZ1 down-regulates FADS1 by binding to rs174557 and is opposed by SP1/SREBP1c.

Pan G, Ameur A, Enroth S, ..., Gyllensten U, Wadelius C

Nucleic Acids Res. 45 (5) 2408-2422 [2017-03-17; online 2016-12-10]

Affiliated researcher

PubMed DOI Crossref

Ligand Discovery for a Peptide-Binding GPCR by Structure-Based Screening of Fragment- and Lead-Like Chemical Libraries.

Ranganathan A, Heine P, Rudling A, ..., Kummer L, Carlsson J

ACS chemical biology 12 (3) 735-745 [2017-03-17; online 2017-01-24]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Inflammation boosts bacteriophage transfer between Salmonella spp.

Diard M, Bakkeren E, Cornuault JK, ..., Slack E, Hardt WD

Science (New York, N.Y.) 355 (6330) 1211-1215 [2017-03-17; online 2017-03-16]

Affiliated researcher Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Identification of endoribonuclease specific cleavage positions reveals novel targets of RNase III in Streptococcus pyogenes.

Le Rhun A, Lécrivain AL, Reimegård J, ..., Della Beffa C, Charpentier E

Nucleic Acids Res. 45 (5) 2329-2340 [2017-03-17; online 2017-01-14]

Affiliated researcher

PubMed DOI Crossref

Late Danubian mitochondrial genomes shed light into the Neolithisation of Central Europe in the 5

Chyleński M, Juras A, Ehler E, ..., Marciniak A, Dabert M

BMC Evol Biol BMC Evolutionary Biology 17 (1) 80 [2017-03-16; online 2017-03-16]

Affiliated researcher

PubMed DOI Crossref

The atypical Rho GTPase RhoD is a regulator of actin cytoskeleton dynamics and directed cell migration.

Blom M, Reis K, Heldin J, Kreuger J, Aspenström P

Exp. Cell Res. 352 (2) 255-264 [2017-03-15; online 2017-02-11]

Affiliated researcher

PubMed DOI Crossref

Safe and Effective Treatment of Experimental Neuroblastoma and Glioblastoma Using Systemically Delivered Triple MicroRNA-Detargeted Oncolytic Semliki Forest Virus

Ramachandran M, Yu D, Dyczynski M, ..., Leja-Jarblad J, Essand M

Clin. Cancer Res. 23 (6) 1519-1530 [2017-03-15; online 2016-09-16]

Affiliated researcher

PubMed DOI Crossref

Revertant mosaicism repairs skin lesions in a patient with keratitis-ichthyosis-deafness syndrome by second-site mutations in connexin 26.

Gudmundsson S, Wilbe M, Ekvall S, ..., Törmä H, Bondeson ML

Hum. Mol. Genet. 26 (6) 1070-1077 [2017-03-15; online 2017-02-06]

Affiliated researcher

PubMed DOI Crossref

Total biosynthesis of the cyclic AMP booster forskolin from

Pateraki I, Andersen-Ranberg J, Jensen NB, ..., Møller BL, Hamberger B

Elife 6 (-) - [2017-03-14; online 2017-03-14]

Affiliated researcher

PubMed DOI Crossref

Microbial community assembly and evolution in subseafloor sediment.

Starnawski P, Bataillon T, Ettema TJ, ..., Schramm A, Kjeldsen KU

Proc. Natl. Acad. Sci. U.S.A. 114 (11) 2940-2945 [2017-03-14; online 2017-02-27]

Affiliated researcher

PubMed DOI Crossref

Comparison of Implicit and Explicit Solvent Models for the Calculation of Solvation Free Energy in Organic Solvents.

Zhang J, Zhang H, Wu T, Wang Q, van der Spoel D

J Chem Theory Comput 13 (3) 1034-1043 [2017-03-14; online 2017-03-06]

Affiliated researcher

PubMed DOI Crossref

TMED10 Protein Interferes with Transforming Growth Factor (TGF)-β Signaling by Disrupting TGF-β Receptor Complex Formation.

Nakano N, Tsuchiya Y, Kako K, ..., Ten Dijke P, Itoh S

J. Biol. Chem. 292 (10) 4099-4112 [2017-03-10; online 2017-01-23]

Affiliated researcher

PubMed DOI Crossref

Immunogenicity is preferentially induced in sparse dendritic cell cultures.

Nasi A, Bollampalli VP, Sun M, ..., Rothfuchs AG, Réthi B

Sci Rep 7 (-) 43989 [2017-03-09; online 2017-03-09]

Affiliated researcher

PubMed DOI Crossref

Identification of Triazolothiadiazoles as Potent Inhibitors of the dCTP Pyrophosphatase 1.

Llona-Minguez S, Höglund A, Wiita E, ..., Scobie M, Helleday T

J. Med. Chem. 60 (5) 2148-2154 [2017-03-09; online 2017-02-15]

Affiliated researcher

PubMed DOI Crossref

Discovery of circulating proteins associated to knee radiographic osteoarthritis.

Lourido L, Ayoglu B, Fernández-Tajes J, ..., Nilsson P, Blanco FJ

Sci Rep 7 (1) 137 [2017-03-09; online 2017-03-09]

Affiliated researcher

PubMed DOI Crossref

Helicobacter pylori Adapts to Chronic Infection and Gastric Disease via pH-Responsive BabA-Mediated Adherence.

Bugaytsova JA, Björnham O, Chernov YA, ..., Berg DE, Borén T

Cell Host Microbe 21 (3) 376-389 [2017-03-08; online 2017-03-11]

Affiliated researcher

PubMed DOI Crossref

Emotional anticipation after delivery - a longitudinal neuroimaging study of the postpartum period.

Gingnell M, Toffoletto S, Wikström J, ..., Comasco E, Sundström-Poromaa I

Sci Rep 7 (1) 114 [2017-03-08; online 2017-03-08]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Systems Biology of Metabolism: A Driver for Developing Personalized and Precision Medicine.

Nielsen J

Cell Metab. 25 (3) 572-579 [2017-03-07; online 2017-03-09]

Affiliated researcher

PubMed DOI Crossref

Ancient X chromosomes reveal contrasting sex bias in Neolithic and Bronze Age Eurasian migrations.

Goldberg A, Günther T, Rosenberg NA, Jakobsson M

Proc. Natl. Acad. Sci. U.S.A. 114 (10) 2657-2662 [2017-03-07; online 2017-02-21]

Affiliated researcher

PubMed DOI Crossref

Whole-Proteome Peptide Microarrays for Profiling Autoantibody Repertoires within Multiple Sclerosis and Narcolepsy.

Zandian A, Forsström B, Häggmark-Månberg A, ..., Nilsson P, Ayoglu B

J. Proteome Res. 16 (3) 1300-1314 [2017-03-03; online 2017-02-09]

Affiliated researcher

PubMed DOI Crossref

A hybrid method for the imputation of genomic data in livestock populations.

Antolín R, Nettelblad C, Gorjanc G, Money D, Hickey JM

Genet. Sel. Evol. 49 (1) 30 [2017-03-03; online 2017-03-03]

Affiliated researcher

PubMed DOI Crossref

Personal model-assisted identification of NAD+ and glutathione metabolism as intervention target in NAFLD.

Mardinoglu A, Bjornson E, Zhang C, ..., Taskinen MR, Boren J

Mol Syst Biol 13 (3) 916 [2017-03-02; online 2017-03-02]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

The application of microbeads to microfluidic systems for enhanced detection and purification of biomolecules.

Pinto IF, Caneira CR, Soares RR, ..., Azevedo AM, Chu V

Methods 116 (-) 112-124 [2017-03-01; online 2016-12-10]

Affiliated researcher

PubMed DOI Crossref

The XChemExplorer graphical workflow tool for routine or large-scale protein-ligand structure determination.

Krojer T, Talon R, Pearce N, ..., Marsden B, von Delft F

Acta Crystallogr D Struct Biol 73 (Pt 3) 267-278 [2017-03-01; online 2017-02-24]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Proper modelling of ligand binding requires an ensemble of bound and unbound states.

Pearce NM, Krojer T, von Delft F

Acta Crystallogr D Struct Biol 73 (Pt 3) 256-266 [2017-03-01; online 2017-03-06]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Gentle, fast and effective crystal soaking by acoustic dispensing.

Collins PM, Ng JT, Talon R, ..., Pearce NM, von Delft F

Acta Crystallogr D Struct Biol 73 (Pt 3) 246-255 [2017-03-01; online 2017-03-06]

DDLS Fellow Nicholas Pearce

PubMed DOI Crossref

Estrogen Receptor β as a Therapeutic Target in Breast Cancer Stem Cells.

Ma R, Karthik GM, Lövrot J, ..., Fredriksson I, Hartman J

J. Natl. Cancer Inst. 109 (3) 1-14 [2017-03-01; online 2017-04-05]

Affiliated researcher

PubMed DOI Crossref

Tracing Cellular Origin of Human Exosomes Using Multiplex Proximity Extension Assays.

Larssen P, Wik L, Czarnewski P, ..., Gabrielsson S, Kamali-Moghaddam M

Mol. Cell Proteomics 16 (3) 502-511 [2017-03-00; online 2017-01-22]

Affiliated researcher

PubMed DOI Crossref

The use of a Swedish telephone medical advice service by the elderly - a population-based study.

Dahlgren K, Holzmann MJ, Carlsson AC, ..., Hasselström J, Ruge T

Scand J Prim Health Care 35 (1) 98-104 [2017-03-00; online 2017-03-03]

Affiliated researcher

PubMed DOI Crossref

T cells in chronic lymphocytic leukemia display dysregulated expression of immune checkpoints and activation markers.

Palma M, Gentilcore G, Heimersson K, ..., Österborg A, Mellstedt H

Haematologica 102 (3) 562-572 [2017-03-00; online 2016-12-07]

Affiliated researcher

PubMed DOI Crossref

Prevalence of autism and attention-deficit-hyperactivity disorder in Down syndrome: a population-based study.

Oxelgren UW, Myrelid Å, Annerén G, ..., Gustafsson J, Fernell E

Dev Med Child Neurol 59 (3) 276-283 [2017-03-00; online 2016-08-09]

Affiliated researcher

PubMed DOI Crossref

Physiological and gene expression responses to nitrogen regimes and temperatures in Mastigocladus sp. strain CHP1, a predominant thermotolerant cyanobacterium of hot springs.

Alcamán ME, Alcorta J, Bergman B, ..., Polz M, Díez B

Syst. Appl. Microbiol. 40 (2) 102-113 [2017-03-00; online 2016-12-28]

Affiliated researcher

PubMed DOI Crossref

Phylogenetic analysis of

Barbosa RN, Leong SL, Vinnere-Pettersson O, ..., Oliveira NT, Houbraken J

Stud. Mycol. 86 (-) 29-51 [2017-03-00; online 2017-04-12]

Affiliated researcher

PubMed DOI Crossref

Pancreatic Fat Is Associated With Metabolic Syndrome and Visceral Fat but Not Beta-Cell Function or Body Mass Index in Pediatric Obesity.

Staaf J, Labmayr V, Paulmichl K, ..., Weghuber D, Kullberg J

Pancreas 46 (3) 358-365 [2017-03-00; online 2016-12-13]

Affiliated researcher

PubMed DOI Crossref

Overexpression of heparanase attenuated TGF-β-stimulated signaling in tumor cells.

Batool T, Fang J, Barash U, ..., Vlodavsky I, Li JP

FEBS Open Bio 7 (3) 405-413 [2017-03-00; online 2017-02-11]

Affiliated researcher

PubMed DOI Crossref

Metapopulation theory identifies biogeographical patterns among core and satellite marine bacteria scaling from tens to thousands of kilometers.

Lindh MV, Sjöstedt J, Ekstam B, ..., Legrand C, Pinhassi J

Environ. Microbiol. 19 (3) 1222-1236 [2017-03-00; online 2017-02-06]

Affiliated researcher DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Human ROBO1 regulates white matter structure in corpus callosum.

Darki F, Massinen S, Salmela E, ..., Klingberg T, Kere J

Brain Struct Funct 222 (2) 707-716 [2017-03-00; online 2016-05-30]

Affiliated researcher

PubMed DOI Crossref

High GC content causes orphan proteins to be intrinsically disordered.

Basile W, Sachenkova O, Light S, Elofsson A

PLoS Comput Biol 13 (3) e1005375 [2017-03-00; online 2017-03-29]

Affiliated researcher

PubMed DOI Crossref

Genome-wide association analysis identifies novel blood pressure loci and offers biological insights into cardiovascular risk.

Warren HR, Evangelou E, Cabrera CP, ..., International Genomics of Blood Pressure (iGEN-BP) Consortium , UK Biobank CardioMetabolic Consortium BP working group

Nat. Genet. 49 (3) 403-415 [2017-03-00; online 2017-01-30]

Affiliated researcher

PubMed DOI Crossref

Genome-wide association analyses for lung function and chronic obstructive pulmonary disease identify new loci and potential druggable targets.

Wain LV, Shrine N, Artigas MS, ..., Hall IP, Tobin MD

Nat. Genet. 49 (3) 416-425 [2017-03-00; online 2017-02-06]

Affiliated researcher

PubMed DOI Crossref

Ethanol affects limbic and striatal presynaptic glutamatergic and DNA methylation gene expression in outbred rats exposed to early-life stress.

Vrettou M, Granholm L, Todkar A, ..., Nylander I, Comasco E

Addict Biol 22 (2) 369-380 [2017-03-00; online 2015-11-27]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Development of a novel therapeutic vaccine carrier that sustains high antibody titers against several targets simultaneously.

Saupe F, Reichel M, Huijbers EJ, ..., Hellman LT, Olsson AK

FASEB J. 31 (3) 1204-1214 [2017-03-00; online 2016-12-19]

Affiliated researcher SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Development of [

Stepanov V, Svedberg M, Jia Z, ..., Nordberg A, Halldin C

Nucl. Med. Biol. 46 (-) 50-53 [2017-03-00; online 2016-12-09]

Affiliated researcher

PubMed DOI Crossref

DNA methylation profiling of pediatric B-cell lymphoblastic leukemia with KMT2A rearrangement identifies hypomethylation at enhancer sites.

Bergmann AK, Castellano G, Alten J, ..., Schrappe M, Siebert R

Pediatr Blood Cancer 64 (3) - [2017-03-00; online 2016-10-27]

Affiliated researcher

PubMed DOI Crossref

Cotranslational folding of spectrin domains via partially structured states.

Nilsson OB, Nickson AA, Hollins JJ, ..., von Heijne G, Clarke J

Nat. Struct. Mol. Biol. 24 (3) 221-225 [2017-03-00; online 2017-01-23]

Affiliated researcher

PubMed DOI Crossref

Biomimetic spinning of artificial spider silk from a chimeric minispidroin.

Andersson M, Jia Q, Abella A, ..., Johansson J, Rising A

Nat. Chem. Biol. 13 (3) 262-264 [2017-03-00; online 2017-01-09]

Affiliated researcher

PubMed DOI Crossref

Association of Pregnancy Complications and Characteristics With Future Risk of Elevated Blood Pressure: The Västerbotten Intervention Program.

Parikh NI, Norberg M, Ingelsson E, ..., Jansson JH, Edstedt Bonamy AK

Hypertension 69 (3) 475-483 [2017-03-00; online 2017-01-30]

Affiliated researcher

PubMed DOI Crossref

Functional genomics analysis of vitamin D effects on CD4+ T cells in vivo in experimental autoimmune encephalomyelitis ‬.

Zeitelhofer M, Adzemovic MZ, Gomez-Cabrero D, ..., Guerreiro-Cacais AO, Jagodic M

Proc. Natl. Acad. Sci. U.S.A. 114 (9) E1678-E1687 [2017-02-28; online 2017-02-14]

Affiliated researcher

DOI Crossref

Measuring true localization accuracy in super resolution microscopy with DNA-origami nanostructures

Reuss M, Fördős F, Blom H, ..., Högberg B, Brismar H

New J. Phys. 19 (2) 025013 [2017-02-27; online 2017-02-27]

Affiliated researcher

PubMed DOI Crossref

Genome-wide effects of MELK-inhibitor in triple-negative breast cancer cells indicate context-dependent response with p53 as a key determinant.

Simon M, Mesmar F, Helguero L, Williams C

PLoS ONE 12 (2) e0172832 [2017-02-24; online 2017-02-24]

Affiliated researcher

PubMed DOI Crossref

Epitopes of anti-RIFIN antibodies and characterization of rif-expressing Plasmodium falciparum parasites by RNA sequencing.

Ch'ng JH, Sirel M, Zandian A, ..., Qundos U, Wahlgren M

Sci Rep 7 (-) 43190 [2017-02-24; online 2017-02-24]

Affiliated researcher

PubMed DOI Crossref

Structural Basis for Potency and Promiscuity in Poly(ADP-ribose) Polymerase (PARP) and Tankyrase Inhibitors.

Thorsell AG, Ekblad T, Karlberg T, ..., Cohen MS, Schüler H

J. Med. Chem. 60 (4) 1262-1271 [2017-02-23; online 2016-12-21]

Affiliated researcher

PubMed DOI Crossref

Imatinib increases oxygen delivery in extracellular matrix-rich but not in matrix-poor experimental carcinoma.

Burmakin M, van Wieringen T, Olsson PO, ..., Rubin K, Hellberg C

J Transl Med 15 (1) 47 [2017-02-23; online 2017-02-23]

Affiliated researcher

PubMed DOI Crossref

Intracellular drug bioavailability: a new predictor of system dependent drug disposition.

Mateus A, Treyer A, Wegler C, ..., Matsson P, Artursson P

Sci Rep 7 (-) 43047 [2017-02-22; online 2017-02-22]

Affiliated researcher

PubMed DOI Crossref

Understanding the Role of GPCR Heteroreceptor Complexes in Modulating the Brain Networks in Health and Disease.

Borroto-Escuela DO, Carlsson J, Ambrogini P, ..., Diaz-Cabiale Z, Fuxe K

Front. Cell. Neurosci. 11 (-) 37 [2017-02-21; online 2017-02-21]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

RhoA knockout fibroblasts lose tumor-inhibitory capacity in vitro and promote tumor growth in vivo.

Alkasalias T, Alexeyenko A, Hennig K, ..., Gad AK, Pavlova T

Proc. Natl. Acad. Sci. U.S.A. 114 (8) E1413-E1421 [2017-02-21; online 2017-02-07]

Affiliated researcher

PubMed DOI Crossref

Application of Noncanonical Amino Acids for Protein Labeling in a Genomically Recoded Escherichia coli.

Kipper K, Lundius EG, Ćurić V, ..., Lemke EA, Elf J

ACS Synth. Biol. 6 (2) 233-255 [2017-02-17; online 2016-11-23]

Affiliated researcher

PubMed DOI Crossref

Comparison of whole genome amplification techniques for human single cell exome sequencing.

Borgström E, Paterlini M, Mold JE, Frisen J, Lundeberg J

PLoS ONE 12 (2) e0171566 [2017-02-16; online 2017-02-16]

Affiliated researcher

PubMed DOI Crossref

Uncertainty estimation of predictions of peptides' chromatographic retention times in shotgun proteomics.

Maboudi Afkham H, Qiu X, The M, Käll L

Bioinformatics 33 (4) 508-513 [2017-02-15; online 2016-11-03]

Affiliated researcher

PubMed DOI Crossref

Nitration of MOG diminishes its encephalitogenicity depending on MHC haplotype.

Warnecke A, Musunuri S, N'diaye M, ..., Bergquist J, Harris RA

J. Neuroimmunol. 303 (-) 1-12 [2017-02-15; online 2016-11-26]

Affiliated researcher

PubMed DOI Crossref

Genital Injury Signatures and Microbiome Alterations Associated With Depot Medroxyprogesterone Acetate Usage and Intravaginal Drying Practices.

Birse KD, Romas LM, Guthrie BL, ..., Broliden K, Burgener AD

J. Infect. Dis. 215 (4) 590-598 [2017-02-15; online 2016-12-25]

Affiliated researcher

PubMed DOI Crossref

Delineating Amyloid Plaque Associated Neuronal Sphingolipids in Transgenic Alzheimer's Disease Mice (tgArcSwe) Using MALDI Imaging Mass Spectrometry.

Kaya I, Brinet D, Michno W, ..., Blennow K, Hanrieder J

ACS Chem Neurosci 8 (2) 347-355 [2017-02-15; online 2017-01-10]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Crystal Structure of the Emerging Cancer Target MTHFD2 in Complex with a Substrate-Based Inhibitor.

Gustafsson R, Jemth AS, Gustafsson NM, ..., Helleday T, Stenmark P

Cancer Res. 77 (4) 937-948 [2017-02-15; online 2016-11-29]

Affiliated researcher

PubMed DOI Crossref

The Baltic Sea Virome: Diversity and Transcriptional Activity of DNA and RNA Viruses.

Zeigler Allen L, McCrow JP, Ininbergs K, ..., Bergman B, Venter JC

mSystems 2 (1) - [2017-02-14; online 2017-02-14]

Affiliated researcher

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A novel RNA sequencing data analysis method for cell line authentication.

Fasterius E, Raso C, Kennedy S, ..., Uhlén M, Al-Khalili Szigyarto C

PLoS ONE 12 (2) e0171435 [2017-02-13; online 2017-02-13]

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Genetic and Functional Study of L-Type Amino Acid Transporter 1 in Schizophrenia.

Comasco E, Vumma R, Toffoletto S, ..., Jönsson EG, Venizelos N

Neuropsychobiology 74 (2) 96-103 [2017-02-11; online 2017-02-11]

Erika Comasco SciLifeLab Fellow

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VMCMC: a graphical and statistical analysis tool for Markov chain Monte Carlo traces.

Ali RH, Bark M, Miró J, ..., Abbas RM, Arvestad L

BMC Bioinformatics 18 (1) 97 [2017-02-10; online 2017-02-10]

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Nanometer resolution imaging and tracking of fluorescent molecules with minimal photon fluxes.

Balzarotti F, Eilers Y, Gwosch KC, ..., Elf J, Hell SW

Science 355 (6325) 606-612 [2017-02-10; online 2016-12-22]

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Molecular dissection of colorectal cancer in pre-clinical models identifies biomarkers predicting sensitivity to EGFR inhibitors.

Schütte M, Risch T, Abdavi-Azar N, ..., Lehrach H, Yaspo ML

Nat Commun 8 (-) 14262 [2017-02-10; online 2017-02-10]

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microRNAs with AAGUGC seed motif constitute an integral part of an oncogenic signaling network.

Zhou Y, Frings O, Branca RM, ..., Agami R, Orre LM

Oncogene 36 (6) 731-745 [2017-02-09; online 2016-08-01]

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Rare and low-frequency coding variants alter human adult height.

Marouli E, Graff M, Medina-Gomez C, ..., Deloukas P, Lettre G

Nature 542 (7640) 186-190 [2017-02-09; online 2017-02-01]

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Molecular composition of organic matter controls methylmercury formation in boreal lakes.

Bravo AG, Bouchet S, Tolu J, ..., Mateos-Rivera A, Bertilsson S

Nat Commun 8 (-) 14255 [2017-02-09; online 2017-02-09]

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The internal cranial anatomy of Romundina stellina Ørvig, 1975 (Vertebrata, Placodermi, Acanthothoraci) and the origin of jawed vertebrates-Anatomical atlas of a primitive gnathostome.

Dupret V, Sanchez S, Goujet D, Ahlberg PE

PLoS ONE 12 (2) e0171241 [2017-02-07; online 2017-02-07]

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EZH2 inhibition in multiple myeloma downregulates myeloma associated oncogenes and upregulates microRNAs with potential tumor suppressor functions.

Alzrigat M, Párraga AA, Agarwal P, ..., Kalushkova A, Jernberg-Wiklund H

Oncotarget 8 (6) 10213-10224 [2017-02-07; online 2017-01-05]

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Genome-wide association analysis implicates dysregulation of immunity genes in chronic lymphocytic leukaemia.

Law PJ, Berndt SI, Speedy HE, ..., Houlston R, Slager S

Nat Commun 8 (-) 14175 [2017-02-06; online 2017-02-06]

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The structure of the yeast mitochondrial ribosome.

Desai N, Brown A, Amunts A, Ramakrishnan V

Science (New York, N.Y.) 355 (6324) 528-531 [2017-02-03; online 2017-02-06]

Affiliated researcher Alexey Amunts SciLifeLab Fellow

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Seasonal Variation in Abundance and Diversity of Bacterial Methanotrophs in Five Temperate Lakes.

Samad MS, Bertilsson S

Front Microbiol 8 (-) 142 [2017-02-03; online 2017-02-03]

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Posttranscriptional Regulation in Adenovirus Infected Cells.

Zhao H, Konzer A, Mi J, ..., Pettersson U, Lind SB

J. Proteome Res. 16 (2) 872-888 [2017-02-03; online 2016-12-13]

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A Synthesis of "Dual Warhead" β-Aryl Ethenesulfonyl Fluorides and One-Pot Reaction to β-Sultams.

Chinthakindi PK, Govender KB, Kumar AS, ..., Naicker T, Arvidsson PI

Org. Lett. 19 (3) 480-483 [2017-02-03; online 2017-01-11]

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Variation in Mutational Robustness between Different Proteins and the Predictability of Fitness Effects.

Lind PA, Arvidsson L, Berg OG, Andersson DI

Mol. Biol. Evol. 34 (2) 408-418 [2017-02-01; online 2016-12-28]

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The Human Adrenal Gland Proteome Defined by Transcriptomics and Antibody-Based Profiling.

Bergman J, Botling J, Fagerberg L, ..., Uhlén M, Pontén F

Endocrinology 158 (2) 239-251 [2017-02-01; online 2016-12-03]

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Prokaryotic ubiquitin-like protein remains intrinsically disordered when covalently attached to proteasomal target proteins.

Barandun J, Damberger FF, Delley CL, ..., Allain FH, Weber-Ban E

BMC Struct. Biol. 17 (1) 1 [2017-02-01; online 2017-02-01]

Jonas Barandun SciLifeLab Fellow

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Mouse Models of Pediatric Supratentorial High-grade Glioma Reveal How Cell-of-Origin Influences Tumor Development and Phenotype.

Sreedharan S, Maturi NP, Xie Y, ..., Swartling FJ, Uhrbom L

Cancer Res. 77 (3) 802-812 [2017-02-01; online 2016-11-15]

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Massive parallel sequencing questions the pathogenic role of missense variants in dilated cardiomyopathy.

Dalin MG, Engström PG, Ivarsson EG, ..., Andersson B, Bergo MO

Int. J. Cardiol. 228 (-) 742-748 [2017-02-01; online 2016-11-09]

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Genome-wide association study with additional genetic and post-transcriptional analyses reveals novel regulators of plasma factor XI levels.

Sennblad B, Basu S, Mazur J, ..., Trégouët DA, Sabater-Lleal M

Hum. Mol. Genet. 26 (3) 637-649 [2017-02-01; online 2017-01-06]

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Design, synthesis and in vitro biological evaluation of oligopeptides targeting E. coli type I signal peptidase (LepB).

De Rosa M, Lu L, Zamaratski E, ..., Mowbray SL, Karlén A

Bioorg. Med. Chem. 25 (3) 897-911 [2017-02-01; online 2016-12-07]

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Clinical and Immunological Characteristics of Autoimmune Addison Disease: A Nationwide Swedish Multicenter Study.

Dalin F, Nordling Eriksson G, Dahlqvist P, ..., Kämpe O, Bensing S

J. Clin. Endocrinol. Metab. 102 (2) 379-389 [2017-02-01; online 2016-11-22]

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Clinical Characterization of Patients With Autosomal Dominant Short Stature due to Aggrecan Mutations.

Gkourogianni A, Andrew M, Tyzinski L, ..., Nilsson O, Dauber A

J. Clin. Endocrinol. Metab. 102 (2) 460-469 [2017-02-01; online 2016-11-22]

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Whole-Genome Sequencing of Cytogenetically Balanced Chromosome Translocations Identifies Potentially Pathological Gene Disruptions and Highlights the Importance of Microhomology in the Mechanism of Formation.

Nilsson D, Pettersson M, Gustavsson P, ..., Carvalho CMB, Lindstrand A

Hum. Mutat. 38 (2) 180-192 [2017-02-00; online 2016-12-05]

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The terpene synthase gene family in Tripterygium wilfordii harbors a labdane-type diterpene synthase among the monoterpene synthase TPS-b subfamily.

Hansen NL, Heskes AM, Hamberger B, ..., Andersen-Ranberg J, Hamberger B

Plant J. 89 (3) 429-441 [2017-02-00; online 2017-02-14]

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Targeting SAMHD1 with the Vpx protein to improve cytarabine therapy for hematological malignancies.

Herold N, Rudd SG, Ljungblad L, ..., Helleday T, Schaller T

Nat. Med. 23 (2) 256-263 [2017-02-00; online 2017-01-09]

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Self-correcting mismatches during high-fidelity DNA replication.

Fernandez-Leiro R, Conrad J, Yang JC, ..., Scheres SH, Lamers MH

Nat. Struct. Mol. Biol. 24 (2) 140-143 [2017-02-00; online 2017-01-09]

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Robust, universal biomarker assay to detect senescent cells in biological specimens.

Evangelou K, Lougiakis N, Rizou SV, ..., Bartek J, Gorgoulis VG

Aging Cell 16 (1) 192-197 [2017-02-00; online 2016-11-17]

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PCSK9 genetic variants and risk of type 2 diabetes: a mendelian randomisation study

Schmidt AF, Swerdlow DI, Holmes MV, ..., Hingorani AD, Sattar N

The Lancet Diabetes & Endocrinology 5 (2) 97-105 [2017-02-00; online 2017-02-00]

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Opioid precursor protein isoform is targeted to the cell nuclei in the human brain.

Kononenko O, Bazov I, Watanabe H, ..., Yakovleva T, Bakalkin G

Biochim Biophys Acta Gen Subj 1861 (2) 246-255 [2017-02-00; online 2016-11-10]

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Multifractal Characterization of Pharmaceutical Hot-Melt Extrudates.

Adler C, Teleki A, Kuentz M

Pharm. Res. 34 (2) 321-332 [2017-02-00; online 2016-11-14]

Alexandra Teleki SciLifeLab Fellow

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Mosaicism in health and disease - clones picking up speed.

Forsberg LA, Gisselsson D, Dumanski JP

Nat. Rev. Genet. 18 (2) 128-142 [2017-02-00; online 2016-12-12]

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Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes.

Romanov RA, Zeisel A, Bakker J, ..., Horvath TL, Harkany T

Nat. Neurosci. 20 (2) 176-188 [2017-02-00; online 2016-12-19]

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Metabolic Syndrome Development During Aging with Special Reference to Obesity Without the Metabolic Syndrome.

Roos V, Elmståhl S, Ingelsson E, ..., Ärnlöv J, Lind L

Metab Syndr Relat Disord 15 (1) 36-43 [2017-02-00; online 2016-10-18]

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Meta-omic analyses of Baltic Sea cyanobacteria: diversity, community structure and salt acclimation.

Celepli N, Sundh J, Ekman M, ..., Bergman B, Ininbergs K

Environ. Microbiol. 19 (2) 673-686 [2017-02-00; online 2017-01-27]

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Mercury Human Exposure in Populations Living Around Lake Tana (Ethiopia).

Habiba G, Abebe G, Bravo AG, ..., Staffan Ǻ, Bishop K

Biol Trace Elem Res 175 (2) 237-243 [2017-02-00; online 2016-06-09]

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Identification of new TRIP12 variants and detailed clinical evaluation of individuals with non-syndromic intellectual disability with or without autism.

Bramswig NC, Lüdecke HJ, Pettersson M, ..., Kleefstra T, Wieczorek D

Hum. Genet. 136 (2) 179-192 [2017-02-00; online 2016-11-15]

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Genetic variants associated with angiotensin-converting enzyme inhibitor-induced cough: a genome-wide association study in a Swedish population.

Hallberg P, Persson M, Axelsson T, ..., Eriksson N, Wadelius M

Pharmacogenomics 18 (3) 201-213 [2017-02-00; online 2017-01-13]

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Dwarfism and Altered Craniofacial Development in Rabbits Is Caused by a 12.1 kb Deletion at the HMGA2 Locus.

Carneiro M, Hu D, Archer J, ..., Rubin CJ, Andersson L

Genetics 205 (2) 955-965 [2017-02-00; online 2016-12-16]

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Crop-to-wild gene flow and its fitness consequences for a wild fruit tree: Towards a comprehensive conservation strategy of the wild apple in Europe.

Feurtey A, Cornille A, Shykoff JA, Snirc A, Giraud T

Evol Appl 10 (2) 180-188 [2017-02-00; online 2016-12-26]

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Antigen receptor stereotypy in chronic lymphocytic leukemia.

Stamatopoulos K, Agathangelidis A, Rosenquist R, Ghia P

Leukemia 31 (2) 282-291 [2017-02-00; online 2016-11-04]

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Activation of myeloid and endothelial cells by CD40L gene therapy supports T-cell expansion and migration into the tumor microenvironment.

Eriksson E, Moreno R, Milenova I, ..., Alemany R, Loskog A

Gene Ther. 24 (2) 92-103 [2017-02-00; online 2016-12-01]

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A meta-analysis of reflux genome-wide association studies in 6750 Northern Europeans from the general population.

Bonfiglio F, Hysi PG, Ek W, ..., Schmidt PT, D'Amato M

Neurogastroenterol. Motil. 29 (2) - [2017-02-00; online 2016-08-03]

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Towards encoded particles for highly multiplexed colorimetric point of care autoantibody detection.

Svedberg G, Jeong Y, Na H, ..., Gantelius J, Svahn HA

Lab Chip 17 (3) 549-556 [2017-01-31; online 2017-01-20]

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Predicting growth of the healthy infant using a genome scale metabolic model.

Nilsson A, Mardinoglu A, Nielsen J

NPJ Syst Biol Appl 3 (1) 3 [2017-01-31; online 2017-01-31]

Adil Mardinoglu Avlant Nilsson SciLifeLab Fellow

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Genomic analysis reveals major determinants of cis-regulatory variation in Capsella grandiflora.

Steige KA, Laenen B, Reimegård J, Scofield DG, Slotte T

Proc. Natl. Acad. Sci. U.S.A. 114 (5) 1087-1092 [2017-01-31; online 2017-01-17]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

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Active Site Hydrophobicity and the Convergent Evolution of Paraoxonase Activity in Structurally Divergent Enzymes: The Case of Serum Paraoxonase 1.

Blaha-Nelson D, Krüger DM, Szeler K, Ben-David M, Kamerlin SC

J. Am. Chem. Soc. 139 (3) 1155-1167 [2017-01-25; online 2017-01-11]

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A novel method for crosstalk analysis of biological networks: improving accuracy of pathway annotation.

Ogris C, Guala D, Helleday T, Sonnhammer EL

Nucleic Acids Res. 45 (2) e8 [2017-01-25; online 2016-09-22]

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c-Jun-N-terminal phosphorylation regulates DNMT1 expression and genome wide methylation in gliomas.

Heiland DH, Ferrarese R, Claus R, ..., Nelander S, Carro MS

Oncotarget 8 (4) 6940-6954 [2017-01-24; online 2016-12-31]

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Glioblastoma Cell Malignancy and Drug Sensitivity Are Affected by the Cell of Origin.

Jiang Y, Marinescu VD, Xie Y, ..., Nelander S, Uhrbom L

Cell Reports 18 (4) 977-990 [2017-01-24; online 2017-01-26]

Affiliated researcher

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Vimentin Levels and Serine 71 Phosphorylation in the Control of Cell-Matrix Adhesions, Migration Speed, and Shape of Transformed Human Fibroblasts.

Terriac E, Coceano G, Mavajian Z, ..., Lautenschläger F, Gad AK

Cells 6 (1) 2 [2017-01-22; online 2017-01-22]

Affiliated researcher Ilaria Testa SciLifeLab Fellow

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Affibody Scaffolds Improve Sesquiterpene Production in Saccharomyces cerevisiae.

Tippmann S, Anfelt J, David F, ..., Nielsen J, Hudson EP

ACS Synth. Biol. 6 (1) 19-28 [2017-01-20; online 2016-08-30]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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Asgard archaea illuminate the origin of eukaryotic cellular complexity.

Zaremba-Niedzwiedzka K, Caceres EF, Saw JH, ..., Spang A, Ettema TJ

Nature 541 (7637) 353-358 [2017-01-19; online 2017-01-11]

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Novel genetic loci associated with hippocampal volume.

Hibar DP, Adams HHH, Jahanshad N, ..., Thompson PM, Ikram MA

Nat Commun 8 (-) 13624 [2017-01-18; online 2017-01-18]

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Lithium Accumulates in Neurogenic Brain Regions as Revealed by High Resolution Ion Imaging.

Zanni G, Michno W, Di Martino E, ..., Blomgren K, Hanrieder J

Sci Rep 7 (-) 40726 [2017-01-18; online 2017-01-18]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Targeted DNA sequencing and in situ mutation analysis using mobile phone microscopy.

Kühnemund M, Wei Q, Darai E, ..., Ozcan A, Nilsson M

Nat Commun 8 (-) 13913 [2017-01-17; online 2017-01-17]

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Genome-wide screen of cell-cycle regulators in normal and tumor cells identifies a differential response to nucleosome depletion.

Sokolova M, Turunen M, Mortusewicz O, ..., Helleday T, Taipale J

Cell Cycle 16 (2) 189-199 [2017-01-17; online 2016-12-08]

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Cell of Origin Links Histotype Spectrum to Immune Microenvironment Diversity in Non-small-Cell Lung Cancer Driven by Mutant Kras and Loss of Lkb1.

Nagaraj AS, Lahtela J, Hemmes A, ..., Närhi K, Verschuren EW

Cell Reports 18 (3) 673-684 [2017-01-17; online 2017-01-19]

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Ameloblastoma RNA profiling uncovers a distinct non-coding RNA signature.

Davanian H, Balasiddaiah A, Heymann R, ..., Kruger Weiner C, Chen M

Oncotarget 8 (3) 4530-4542 [2017-01-17; online 2016-12-15]

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Architecture of the yeast small subunit processome.

Chaker-Margot M, Barandun J, Hunziker M, Klinge S

Science 355 (6321) - [2017-01-13; online 2016-12-15]

Jonas Barandun SciLifeLab Fellow

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Rituximab capping triggers intracellular reorganization of B cells

Koller T, Blok S, Santos AM, ..., Sezgin E, Eggeling C

Matters - (-) - [2017-01-12; online 2017-01-12]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

New insights into the GINS complex explain the controversy between existing structural models.

Carroni M, De March M, Medagli B, ..., Patwardhan A, Onesti S

Sci Rep 7 (-) 40188 [2017-01-10; online 2017-01-10]

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Major transitions in dinoflagellate evolution unveiled by phylotranscriptomics.

Janouškovec J, Gavelis GS, Burki F, ..., Rohwer FL, Saldarriaga JF

Proc. Natl. Acad. Sci. U.S.A. 114 (2) E171-E180 [2017-01-10; online 2016-12-27]

Fabien Burki SciLifeLab Fellow

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Development of Cell-Permeable, Non-Helical Constrained Peptides to Target a Key Protein-Protein Interaction in Ovarian Cancer.

Wiedmann MM, Tan YS, Wu Y, ..., Brenton JD, Spring DR

Angew. Chem. Int. Ed. Engl. 56 (2) 524-529 [2017-01-09; online 2016-12-05]

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Identification of a Novel Autoimmune Peptide Epitope of Prostein in Prostate Cancer.

Pin E, Henjes F, Hong MG, ..., Nilsson P, Schwenk JM

J. Proteome Res. 16 (1) 204-216 [2017-01-06; online 2016-10-24]

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Antibody Validation in Bioimaging Applications Based on Endogenous Expression of Tagged Proteins.

Skogs M, Stadler C, Schutten R, ..., Uhlén M, Lundberg E

J. Proteome Res. 16 (1) 147-155 [2017-01-06; online 2016-10-26]

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Single-Cell Analysis Reveals a Close Relationship between Differentiating Dopamine and Subthalamic Nucleus Neuronal Lineages.

Kee N, Volakakis N, Kirkeby A, ..., Parmar M, Perlmann T

Cell Stem Cell 20 (1) 29-40 [2017-01-05; online 2016-10-27]

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Epigenome-wide association study of body mass index, and the adverse outcomes of adiposity.

Wahl S, Drong A, Lehne B, ..., Grallert H, Chambers JC

Nature 541 (7635) 81-86 [2017-01-05; online 2016-12-21]

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HieranoiDB: a database of orthologs inferred by Hieranoid.

Kaduk M, Riegler C, Lemp O, Sonnhammer EL

Nucleic Acids Res. 45 (D1) D687-D690 [2017-01-04; online 2016-10-13]

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DisProt 7.0: a major update of the database of disordered proteins.

Piovesan D, Tabaro F, Mičetić I, ..., Tompa P, Tosatto SC

Nucleic Acids Res. 45 (D1) D219-D227 [2017-01-04; online 2016-11-28]

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A systematic search strategy identifies cubilin as independent prognostic marker for renal cell carcinoma.

Gremel G, Djureinovic D, Niinivirta M, ..., Stewart GD, Pontén F

BMC Cancer 17 (1) 9 [2017-01-04; online 2017-01-04]

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TRIM28 Controls a Gene Regulatory Network Based on Endogenous Retroviruses in Human Neural Progenitor Cells.

Brattås PL, Jönsson ME, Fasching L, ..., Parmar M, Jakobsson J

Cell Reports 18 (1) 1-11 [2017-01-03; online 2017-01-05]

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Sex differences in depression during pregnancy and the postpartum period.

Sundström Poromaa I, Comasco E, Georgakis MK, Skalkidou A

J Neurosci Res 95 (1-2) 719-730 [2017-01-02; online 2016-11-22]

Erika Comasco SciLifeLab Fellow

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Comprehensive RNA sequencing of healthy human endometrium at two time points of the menstrual cycle.

Sigurgeirsson B, Åmark H, Jemt A, ..., Lundeberg J, Gidlöf S

Biol. Reprod. 96 (1) 24-33 [2017-01-01; online 2017-04-11]

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CADEE: Computer-Aided Directed Evolution of Enzymes.

Amrein BA, Steffen-Munsberg F, Szeler I, ..., Kulkarni Y, Kamerlin SCL

IUCrJ 4 (Pt 1) 50-64 [2017-01-01; online 2017-01-01]

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Associations between a polymorphism in the hydroxysteroid (11-beta) dehydrogenase 1 gene, neuroticism and postpartum depression.

Iliadis SI, Comasco E, Hellgren C, ..., Sundström Poromaa I, Skalkidou A

J Affect Disord 207 (-) 141-147 [2017-01-01; online 2016-09-26]

Erika Comasco SciLifeLab Fellow

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Why mitochondria need a genome revisited.

Björkholm P, Ernst AM, Hagström E, Andersson SG

FEBS Lett. 591 (1) 65-75 [2017-01-00; online 2016-12-20]

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Whole gene duplication of SCN2A and SCN3A is associated with neonatal seizures and a normal intellectual development.

Thuresson AC, Van Buggenhout G, Sheth F, ..., Clayton Smith J, Soussi Zander C

Clin. Genet. 91 (1) 106-110 [2017-01-00; online 2016-06-02]

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Transcriptional Dynamics During Human Adipogenesis and Its Link to Adipose Morphology and Distribution.

Ehrlund A, Mejhert N, Björk C, ..., Arner P, Arner E

Diabetes 66 (1) 218-230 [2017-01-00; online 2016-11-01]

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Targeting TGF-β Signaling in Cancer.

Colak S, Ten Dijke P

Trends Cancer 3 (1) 56-71 [2017-01-00; online 2017-01-03]

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Systemic lupus erythematosus: still a challenge for physicians.

Bengtsson AA, Rönnblom L

J. Intern. Med. 281 (1) 52-64 [2017-01-00; online 2016-06-16]

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Region-specific bioconversion of dynorphin neuropeptide detected by in situ histochemistry and MALDI imaging mass spectrometry.

Bivehed E, Strömvall R, Bergquist J, Bakalkin G, Andersson M

Peptides 87 (-) 20-27 [2017-01-00; online 2016-11-10]

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Nano-liquid Chromatography-orbitrap MS-based Quantitative Proteomics Reveals Differences Between the Mechanisms of Action of Carnosic Acid and Carnosol in Colon Cancer Cells.

Valdés A, García-Cañas V, Artemenko KA, ..., Bergquist J, Cifuentes A

Mol. Cell Proteomics 16 (1) 8-22 [2017-01-00; online 2016-11-10]

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Mutational analysis of protein folding inside the ribosome exit tunnel.

Farías-Rico JA, Goetz SK, Marino J, von Heijne G

FEBS Lett. 591 (1) 155-163 [2017-01-00; online 2016-12-20]

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Multispecies genetic structure and hybridization in the Betula genus across Eurasia.

Tsuda Y, Semerikov V, Sebastiani F, Vendramin GG, Lascoux M

Mol. Ecol. 26 (2) 589-605 [2017-01-00; online 2016-12-24]

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Multiethnic genome-wide meta-analysis of ectopic fat depots identifies loci associated with adipocyte development and differentiation.

Chu AY, Deng X, Fisher VA, ..., Steinhauser ML, Fox CS

Nat. Genet. 49 (1) 125-130 [2017-01-00; online 2016-12-05]

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Modulation of the molecular arrangement in artificial and biological membranes by phospholipid-shelled microbubbles.

Carugo D, Aron M, Sezgin E, ..., Eggeling C, Stride E

Biomaterials 113 (-) 105-117 [2017-01-00; online 2016-10-24]

Erdinc Sezgin SciLifeLab Fellow

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Heinonen S, Muniandy M, Buzkova J, ..., Rissanen A, Pietiläinen KH

Diabetologia 60 (1) 169-181 [2017-01-00; online 2016-10-12]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Lake bacterioplankton dynamics over diurnal timescales

Grubisic LM, Bertilsson S, Eiler A, ..., Riemann L, Beier S

Freshw Biol 62 (1) 191-204 [2017-01-00; online 2016-12-16]

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Kynurenic acid and psychotic symptoms and personality traits in twins with psychiatric morbidity.

Kegel ME, Johansson V, Wetterberg L, ..., Hultman CM, Erhardt S

Psychiatry Res 247 (-) 105-112 [2017-01-00; online 2016-11-16]

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Investigating kinship of Neolithic post-LBK human remains from Krusza Zamkowa, Poland using ancient DNA.

Juras A, Chyleński M, Krenz-Niedbała M, ..., Jakobsson M, Dabert M

Forensic Sci Int Genet 26 (-) 30-39 [2017-01-00; online 2016-10-14]

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Induction of the 5S RNP-Mdm2-p53 ribosomal stress pathway delays the initiation but fails to eradicate established murine acute myeloid leukemia.

Jaako P, Ugale A, Wahlestedt M, ..., Lindström MS, Bryder D

Leukemia 31 (1) 213-221 [2017-01-00; online 2016-06-03]

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Human immune system variation.

Brodin P, Davis MM

Nat. Rev. Immunol. 17 (1) 21-29 [2017-01-00; online 2016-12-05]

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Genetic and methylation variation in the CYP2B6 gene is related to circulating p,p'-dde levels in a population-based sample.

Lind L, Ng E, Ingelsson E, ..., Morris AP, Lind PM

Environ Int 98 (-) 212-218 [2017-01-00; online 2016-11-11]

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Flow-cytometric screening of aggregation-inhibitors using a fluorescence-assisted intracellular method.

Lindberg H, Sandersjöö L, Meister SW, ..., Löfblom J, Ståhl S

Biotechnol J 12 (1) - [2017-01-00; online 2016-12-01]

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Expression of possible targets for new proteasome inhibitors in diffuse large B-cell lymphoma.

Delforoush M, Berglund M, Edqvist PH, ..., Gullbo J, Enblad G

Eur. J. Haematol. 98 (1) 52-56 [2017-01-00; online 2016-07-12]

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Evolutionary engineering reveals divergent paths when yeast is adapted to different acidic environments.

Fletcher E, Feizi A, Bisschops MMM, ..., Siewers V, Nielsen J

Metab. Eng. 39 (-) 19-28 [2017-01-00; online 2016-11-02]

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Epigenetic Patterns in Blood Associated With Lipid Traits Predict Incident Coronary Heart Disease Events and Are Enriched for Results From Genome-Wide Association Studies.

Hedman ÅK, Mendelson MM, Marioni RE, ..., Levy D, Ingelsson E

Circ Cardiovasc Genet 10 (1) - [2017-01-00; online 2017-02-19]

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Environmental Risk Factors for Diabetes Mellitus in Cats.

Öhlund M, Egenvall A, Fall T, ..., Röcklinsberg H, Holst BS

J. Vet. Intern. Med. 31 (1) 29-35 [2017-01-00; online 2016-12-01]

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Elevated levels of circulating CDH5 and FABP1 in association with human drug-induced liver injury.

Mikus M, Drobin K, Gry M, ..., Nilsson P, Schuppe-Koistinen I

Liver Int. 37 (1) 132-140 [2017-01-00; online 2016-06-22]

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Droplet size influences division of mammalian cell factories in droplet microfluidic cultivation.

Periyannan Rajeswari PK, Joensson HN, Andersson-Svahn H

Electrophoresis 38 (2) 305-310 [2017-01-00; online 2016-09-12]

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Different functions of AKT1 and AKT2 in molecular pathways, cell migration and metabolism in colon cancer cells.

Häggblad Sahlberg S, Mortensen AC, Haglöf J, ..., Stenerlöw B, Nestor M

Int. J. Oncol. 50 (1) 5-14 [2017-01-00; online 2016-11-18]

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Deep Fish.

Ishaq O, Sadanandan SK, Wählby C

SLAS Discov 22 (1) 102-107 [2017-01-00; online 2016-09-26]

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DNA sequence diversity and the efficiency of natural selection in animal mitochondrial DNA.

James J, Castellano D, Eyre-Walker A

Heredity (Edinb) 118 (1) 88-95 [2017-01-00; online 2016-11-09]

Jennifer James

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Cost and clinical outcome of islet transplantation in Norway 2010-2015.

Schive SW, Foss A, Sahraoui A, ..., Mishra V, Scholz H

Clin Transplant 31 (1) - [2017-01-00; online 2016-12-09]

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Circulating levels of perfluoroalkyl substances (PFASs) and carotid artery atherosclerosis.

Lind PM, Salihovic S, van Bavel B, Lind L

Environ. Res. 152 (-) 157-164 [2017-01-00; online 2016-10-20]

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Both maternal and offspring Elovl2 genotypes determine systemic DHA levels in perinatal mice.

Pauter AM, Trattner S, Gonzalez-Bengtsson A, ..., Dethlefsen O, Jacobsson A

J. Lipid Res. 58 (1) 111-123 [2017-01-00; online 2016-11-18]

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A multi-step peptidolytic cascade for amino acid recovery in chloroplasts.

Teixeira PF, Kmiec B, Branca RM, ..., Lehtiö J, Glaser E

Nat. Chem. Biol. 13 (1) 15-17 [2017-01-00; online 2016-10-31]

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Tumoral ANXA1 Is a Predictive Marker for Sunitinib Treatment of Renal Cancer Patients

Niinivirta M, Enblad G, Edqvist PH, ..., Dragomir A, Ullenhag GJ

J. Cancer 8 (19) 3975-3983 [2017-00-00; online 2017-00-00]

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The Convoluted Evolution of Eukaryotes With Complex Plastids

Burki F

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Affiliated researcher Fabien Burki SciLifeLab Fellow

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Structure-Based Discovery of GPCR Ligands from Crystal Structures and Homology Models

Ranganathan A, Rodríguez D, Carlsson J

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Jens Carlsson SciLifeLab Fellow

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Slipdisc: a versatile sample preparation platform for point of care diagnostics

Banerjee I, Salih T, Ramachandraiah H, ..., Karlsson M, Russom A

RSC Adv. 7 (56) 35048-35054 [2017-00-00; online 2017-00-00]

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Photodynamic therapy targeting VCAM-1-expressing human umbilical vein endothelial cells using a PpIX–VCAM-1 binding peptide–quantum dot conjugate

Yin H, Shi X, Wang H, ..., Li Y, Fu Y

RSC Adv. 7 (80) 50562-50570 [2017-00-00; online 2017-00-00]

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Morphology and histology of acanthodian fin spines from the late Silurian Ramsåsa E locality, Skåne, Swede

Jerve A, Bremer O, Sanchez S, Ahlberg P

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Long Non Coding RNA Biology

Springer [book] (-) - [2017-00-00; online 2017-00-00]

SciLifeLab Fellow Vicent Pelechano

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Lignin depolymerization to monophenolic compounds in a flow-through system

Kumaniaev I, Subbotina E, Sävmarker J, ..., Galkin MV, Samec JSM

Green Chem. 19 (24) 5767-5771 [2017-00-00; online 2017-00-00]

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Inertial microfluidics combined with selective cell lysis for high throughput separation of nucleated cells from whole blood

Ramachandraiah H, Svahn HA, Russom A

RSC Adv. 7 (47) 29505-29514 [2017-00-00; online 2017-00-00]

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Evolution of Resistance to Insecticide in Disease Vectors

Labbé P, David JP, Alout H, ..., Pasteur N, Weill M

- - (-) 313-339 [2017-00-00; online 2017-00-00]

Pascal Milesi SciLifeLab Fellow

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Bridging chemical- and bio-catalysis: high-value liquid transportation fuel production from renewable agricultural residues

Xue C, Liu M, Guo X, ..., Liu F, Yang ST

Green Chem. 19 (3) 660-669 [2017-00-00; online 2017-00-00]

Paul Hudson SciLifeLab Fellow

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Biodegradative activities of fungal isolates from plastic contaminated soils

El-Morsy E

Mycosphere 8 (8) 1071-1087 [2017-00-00; online 2017-00-00]

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A Computable Measure of Algorithmic Probability by Finite Approximations with an Application to Integer Sequences

Soler-Toscano F, Zenil H

Complexity 2017 (-) 1-10 [2017-00-00; online 2017-00-00]

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In Vitro Differentiation of Human CD4+FOXP3+ Induced Regulatory T Cells (iTregs) from Naïve CD4+ T Cells Using a TGF-β-containing Protocol.

Schmidt A, Éliás S, Joshi RN, Tegnér J

J Vis Exp - (118) - [2016-12-30; online 2016-12-30]

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The Chd1 chromatin remodeler shifts hexasomes unidirectionally.

Levendosky RF, Sabantsev A, Deindl S, Bowman GD

Elife 5 (-) - [2016-12-29; online 2016-12-29]

Affiliated researcher SciLifeLab Fellow Sebastian Deindl

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Photon Reabsorption and Nonradiative Energy-Transfer-Induced Quenching of Blue Photoluminescence from Aggregated Graphene Quantum Dots

Gan Z, Xu H, Fu Y

J. Phys. Chem. C 120 (51) 29432-29438 [2016-12-29; online 2016-12-20]

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On the role of water density fluctuations in the inhibition of a proton channel.

Gianti E, Delemotte L, Klein ML, Carnevale V

Proc. Natl. Acad. Sci. U.S.A. 113 (52) E8359-E8368 [2016-12-27; online 2016-12-12]

Affiliated researcher Lucie Delemotte SciLifeLab Fellow

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miR-203 and miR-320 Regulate Bone Morphogenetic Protein-2-Induced Osteoblast Differentiation by Targeting Distal-Less Homeobox 5 (Dlx5).

Laxman N, Mallmin H, Nilsson O, Kindmark A

Genes (Basel) 8 (1) - [2016-12-23; online 2016-12-23]

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TGF-β Affects the Differentiation of Human GM-CSF

Éliás S, Schmidt A, Kannan V, Andersson J, Tegnér J

Front Immunol 7 (-) 603 [2016-12-23; online 2016-12-23]

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Production of individualized V gene databases reveals high levels of immunoglobulin genetic diversity.

Corcoran MM, Phad GE, Vázquez Bernat , ..., Martin M, Karlsson Hedestam GB

Nat Commun 7 (-) 13642 [2016-12-20; online 2016-12-20]

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Pickering and Network Stabilization of Biocompatible Emulsions Using Chitosan-Modified Silica Nanoparticles.

Alison L, Rühs PA, Tervoort E, ..., Isa L, Studart AR

Langmuir 32 (50) 13446-13457 [2016-12-20; online 2016-12-09]

Alexandra Teleki SciLifeLab Fellow

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The spliceosome U2 snRNP factors promote genome stability through distinct mechanisms; transcription of repair factors and R-loop processing.

Tanikawa M, Sanjiv K, Helleday T, Herr P, Mortusewicz O

Oncogenesis 5 (12) e280 [2016-12-19; online 2016-12-19]

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Potential Involvement of Type I Interferon Signaling in Immunotherapy in Seasonal Allergic Rhinitis.

Mattson L, Lentini A, Gawel DR, ..., Xiang Z, Zhang H

J Immunol Res 2016 (-) 5153184 [2016-12-19; online 2016-12-19]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Copy number variability of expression plasmids determined by cell sorting and Droplet Digital PCR.

Jahn M, Vorpahl C, Hübschmann T, Harms H, Müller S

Microb Cell Fact 15 (1) 211 [2016-12-19; online 2016-12-19]

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Transposon Mutagenesis Reveals Fludarabine Resistance Mechanisms in Chronic Lymphocytic Leukemia.

Pandzic T, Larsson J, He L, ..., Sjöblom T, Hellström M

Clin. Cancer Res. 22 (24) 6217-6227 [2016-12-15; online 2016-03-08]

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The genome of Rhizobiales bacteria in predatory ants reveals urease gene functions but no genes for nitrogen fixation.

Neuvonen MM, Tamarit D, Näslund K, ..., Guy L, Andersson SG

Sci Rep 6 (-) 39197 [2016-12-15; online 2016-12-15]

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Novel SACS mutations associated with intellectual disability, epilepsy and widespread supratentorial abnormalities.

Ali Z, Klar J, Jameel M, ..., Baig S, Dahl N

J. Neurol. Sci. 371 (-) 105-111 [2016-12-15; online 2016-10-21]

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Genome-wide association study of caffeine metabolites provides new insights to caffeine metabolism and dietary caffeine-consumption behavior.

Cornelis MC, Kacprowski T, Menni C, ..., Grabe HJ, Ingelsson E

Hum. Mol. Genet. 25 (24) 5472-5482 [2016-12-15; online 2016-10-06]

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Genetic Variants in CHIA and CHI3L1 Are Associated with the IgE Response to the Ascaris Resistance Marker ABA-1 and the Birch Pollen Allergen Bet v 1.

Acevedo N, Bornacelly A, Mercado D, ..., Scheynius A, Caraballo L

PLoS ONE 11 (12) e0167453 [2016-12-15; online 2016-12-15]

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FANCM c.5101C>T mutation associates with breast cancer survival and treatment outcome.

Kiiski JI, Fagerholm R, Tervasmäki A, ..., Blomqvist C, Nevanlinna H

Int. J. Cancer 139 (12) 2760-2770 [2016-12-15; online 2016-09-19]

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The protein phosphatase 2A regulatory subunit PR70 is a gonosomal melanoma tumor suppressor gene.

van Kempen LC, Redpath M, Elchebly M, ..., Feunteun J, Spatz A

Sci Transl Med 8 (369) 369ra177 [2016-12-14; online 2016-12-16]

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The In Vitro Stability of Circulating Tumour DNA.

Henao Diaz E, Yachnin J, Grönberg H, Lindberg J

PLoS ONE 11 (12) e0168153 [2016-12-13; online 2016-12-13]

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KLB is associated with alcohol drinking, and its gene product β-Klotho is necessary for FGF21 regulation of alcohol preference.

Schumann G, Liu C, O'Reilly P, ..., Levy D, Elliott P

Proc. Natl. Acad. Sci. U.S.A. 113 (50) 14372-14377 [2016-12-13; online 2016-11-28]

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Clonal Variation in Drug and Radiation Response among Glioma-Initiating Cells Is Linked to Proneural-Mesenchymal Transition.

Segerman A, Niklasson M, Haglund C, ..., Segerman B, Westermark B

Cell Reports 17 (11) 2994-3009 [2016-12-13; online 2016-12-16]

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Serum Autoantibody Profiling of Patients with Paraneoplastic and Non-Paraneoplastic Autoimmune Retinopathy.

Ten Berge JC, van Rosmalen J, Vermeer J, ..., Rothova A, Schreurs MW

PLoS ONE 11 (12) e0167909 [2016-12-08; online 2016-12-08]

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PDGFB, a new candidate plasma biomarker for venous thromboembolism: results from the VEREMA affinity proteomics study.

Bruzelius M, Iglesias MJ, Hong MG, ..., Trégouët DA, Odeberg J

Blood 128 (23) e59-e66 [2016-12-08; online 2016-10-14]

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Frequent NFKBIE deletions are associated with poor outcome in primary mediastinal B-cell lymphoma.

Mansouri L, Noerenberg D, Young E, ..., Rosenquist R, Damm F

Blood 128 (23) 2666-2670 [2016-12-08; online 2016-09-26]

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Pleiotrophin enhances PDGFB-induced gliomagenesis through increased proliferation of neural progenitor cells.

Zhang L, Laaniste L, Jiang Y, ..., Uhrbom L, Dimberg A

Oncotarget 7 (49) 80382-80390 [2016-12-06; online 2016-11-03]

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Membrane Anchoring and Ion-Entry Dynamics in P-type ATPase Copper Transport.

Grønberg C, Sitsel O, Lindahl E, Gourdon P, Andersson M

Biophys. J. 111 (11) 2417-2429 [2016-12-06; online 2016-12-08]

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Karyotypic complexity rather than chromosome 8 abnormalities aggravates the outcome of chronic lymphocytic leukemia patients with TP53 aberrations.

Blanco G, Puiggros A, Baliakas P, ..., Stamatopoulos K, Espinet B

Oncotarget 7 (49) 80916-80924 [2016-12-06; online 2016-11-09]

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hMYH and hMTH1 cooperate for survival in mismatch repair defective T-cell acute lymphoblastic leukemia.

Eshtad S, Mavajian Z, Rudd SG, ..., Altun M, Helleday T

Oncogenesis 5 (12) e275 [2016-12-05; online 2016-12-05]

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The Effect of Moment of Inertia on the Liquids in Centrifugal Microfluidics.

Pishbin E, Eghbal M, Fakhari S, Kazemzadeh A, Navidbakhsh M

Micromachines (Basel) 7 (12) - [2016-12-02; online 2016-12-02]

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Role of DNA Repair Factor Xeroderma Pigmentosum Protein Group C in Response to Replication Stress As Revealed by DNA Fragile Site Affinity Chromatography and Quantitative Proteomics.

Beresova L, Vesela E, Chamrad I, ..., Mistrik M, Bartek J

J. Proteome Res. 15 (12) 4505-4517 [2016-12-02; online 2016-11-09]

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The topogenic function of S4 promotes membrane insertion of the voltage-sensor domain in the KvAP channel.

Mishima E, Sato Y, Nanatani K, ..., Sakaguchi M, Uozumi N

Biochem. J. 473 (23) 4361-4372 [2016-12-01; online 2016-09-30]

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Quantitative and Selective Analysis of Feline Growth Related Proteins Using Parallel Reaction Monitoring High Resolution Mass Spectrometry.

Sundberg M, Strage EM, Bergquist J, Holst BS, Ramström M

PLoS ONE 11 (12) e0167138 [2016-12-01; online 2016-12-01]

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FARAO: the flexible all-round annotation organizer.

Hammarén R, Pal C, Bengtsson-Palme J

Bioinformatics 32 (23) 3664-3666 [2016-12-01; online 2016-08-04]

Affiliated researcher DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Elucidating selection processes for antibiotic resistance in sewage treatment plants using metagenomics.

Bengtsson-Palme J, Hammarén R, Pal C, ..., Tysklind M, Larsson DGJ

Sci. Total Environ. 572 (-) 697-712 [2016-12-01; online 2016-08-17]

Affiliated researcher DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Validation and development of MTH1 inhibitors for treatment of cancer.

Warpman Berglund U, Sanjiv K, Gad H, ..., Scobie M, Helleday T

Ann. Oncol. 27 (12) 2275-2283 [2016-12-00; online 2016-11-08]

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The disappearing San of southeastern Africa and their genetic affinities.

Schlebusch CM, Prins F, Lombard M, Jakobsson M, Soodyall H

Hum. Genet. 135 (12) 1365-1373 [2016-12-00; online 2016-09-20]

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The ace-1 Locus Is Amplified in All Resistant Anopheles gambiae Mosquitoes: Fitness Consequences of Homogeneous and Heterogeneous Duplications.

Assogba BS, Milesi P, Djogbénou LS, ..., Labbé P, Weill M

PLoS Biol. 14 (12) e2000618 [2016-12-00; online 2016-12-05]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Synthesis of 11C-labeled Sulfonyl Carbamates through a Multicomponent Reaction Employing Sulfonyl Azides, Alcohols, and [11C]CO.

Stevens MY, Chow SY, Estrada S, ..., Åberg O, Odell LR

ChemistryOpen 5 (6) 566-573 [2016-12-00; online 2016-10-05]

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Structural and conformational determinants of macrocycle cell permeability.

Over B, Matsson P, Tyrchan C, ..., Duvall JR, Kihlberg J

Nat. Chem. Biol. 12 (12) 1065-1074 [2016-12-00; online 2016-10-17]

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Squalene-hopene cyclases-evolution, dynamics and catalytic scope.

Syrén PO, Henche S, Eichler A, Nestl BM, Hauer B

Curr. Opin. Struct. Biol. 41 (-) 73-82 [2016-12-00; online 2016-06-20]

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Novel genetic loci underlying human intracranial volume identified through genome-wide association.

Adams HH, Hibar DP, Chouraki V, ..., Ikram MA, Thompson PM

Nat. Neurosci. 19 (12) 1569-1582 [2016-12-00; online 2016-10-03]

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Improvement in Mechanical Performance of Anionic Hydrogels Using Full-Interpenetrating Polymer Network Reinforced with Graphene Oxide Nanosheets

KHEIRABADI M, BAGHERI R, KABIRI K, ..., JOKAR E, ASADIAN E

Adv Polym Technol 35 (4) 386-395 [2016-12-00; online 2016-10-05]

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Higher chylomicron remnants and LDL particle numbers associate with CD36 SNPs and DNA methylation sites that reduce CD36.

Love-Gregory L, Kraja AT, Allum F, ..., Grundberg E, Abumrad NA

J. Lipid Res. 57 (12) 2176-2184 [2016-12-00; online 2016-10-11]

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Heparanase Promotes Glioma Progression and Is Inversely Correlated with Patient Survival.

Kundu S, Xiong A, Spyrou A, ..., Li JP, Forsberg-Nilsson K

Mol. Cancer Res. 14 (12) 1243-1253 [2016-12-00; online 2016-08-26]

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Genome-wide analysis identifies 12 loci influencing human reproductive behavior.

Barban N, Jansen R, de Vlaming R, ..., Snieder H, Mills MC

Nat. Genet. 48 (12) 1462-1472 [2016-12-00; online 2016-10-31]

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Genes mirror migrations and cultures in prehistoric Europe-a population genomic perspective.

Günther T, Jakobsson M

Curr. Opin. Genet. Dev. 41 (-) 115-123 [2016-12-00; online 2016-09-27]

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Fourth Generation of Next-Generation Sequencing Technologies: Promise and Consequences.

Ke R, Mignardi M, Hauling T, Nilsson M

Hum. Mutat. 37 (12) 1363-1367 [2016-12-00; online 2016-08-10]

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Extended exome sequencing identifies BACH2 as a novel major risk locus for Addison's disease.

Eriksson D, Bianchi M, Landegren N, ..., Kämpe O, Pielberg GR

J. Intern. Med. 280 (6) 595-608 [2016-12-00; online 2016-11-02]

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Exploring the oviductal fluid proteome by a lectin-based affinity approach.

Yu H, Reiser J, Besenfelder U, ..., Artemenko K, Mayrhofer C

Proteomics 16 (23) 2962-2966 [2016-12-00; online 2016-11-09]

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Early Perspective.

Seashore-Ludlow B, Lundbäck T

J Biomol Screen 21 (10) 1019-1033 [2016-12-00; online 2016-07-20]

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Distribution and expression of microbial rhodopsins in the Baltic Sea and adjacent waters.

Brindefalk B, Ekman M, Ininbergs K, ..., Pinhassi J, Bergman B

Environ. Microbiol. 18 (12) 4442-4455 [2016-12-00; online 2016-07-14]

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Distance measurements in peridinin-chlorophyll a-protein by light-induced PELDOR spectroscopy. Analysis of triplet state localization.

Di Valentin M, Dal Farra MG, Galazzo L, ..., Hofmann E, Carbonera D

Biochim. Biophys. Acta 1857 (12) 1909-1916 [2016-12-00; online 2016-09-20]

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Computational metabolic engineering strategies for growth-coupled biofuel production by Synechocystis.

Shabestary K, Hudson EP

Metabolic engineering communications 3 (-) 216-226 [2016-12-00; online 2016-07-20]

Paul Hudson SciLifeLab Fellow

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ClpAP is an auxiliary protease for DnaA degradation in Caulobacter crescentus.

Liu J, Francis LI, Jonas K, Laub MT, Chien P

Mol. Microbiol. 102 (6) 1075-1085 [2016-12-00; online 2016-10-17]

Affiliated researcher Kristina Jonas SciLifeLab Fellow

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CSF profiling of the human brain enriched proteome reveals associations of neuromodulin and neurogranin to Alzheimer's disease.

Remnestål J, Just D, Mitsios N, ..., Nilsson P, Häggmark-Månberg A

Proteomics Clin Appl 10 (12) 1242-1253 [2016-12-00; online 2016-10-10]

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Base sequence specificity of counterion binding to DNA: what can MD simulations tell us?

Atzori A, Liggi S, Laaksonen A, ..., Saba G, Mocci F

Can. J. Chem. 94 (12) 1181-1188 [2016-12-00; online 2016-12-00]

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Allochthonous carbon is a major regulator to bacterial growth and community composition in subarctic freshwaters

Roiha T, Peura S, Cusson M, Rautio M

Sci Rep 6 (1) - [2016-12-00; online 2016-09-30]

Sari Peura SciLifeLab Fellow

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A high-throughput functional genomics workflow based on CRISPR/Cas9-mediated targeted mutagenesis in zebrafish.

Varshney GK, Carrington B, Pei W, ..., Sood R, Burgess SM

Nat Protoc 11 (12) 2357-2375 [2016-12-00; online 2016-10-27]

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A SUMO and ubiquitin code coordinates protein traffic at replication factories.

Lecona E, Fernandez-Capetillo O

Bioessays 38 (12) 1209-1217 [2016-12-00; online 2016-09-26]

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A Kinase-Phosphatase Switch Transduces Environmental Information into a Bacterial Cell Cycle Circuit.

Heinrich K, Sobetzko P, Jonas K

PLoS Genet 12 (12) e1006522 [2016-12-00; online 2016-12-12]

Affiliated researcher Kristina Jonas SciLifeLab Fellow

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Harnessing Yeast Peroxisomes for Biosynthesis of Fatty-Acid-Derived Biofuels and Chemicals with Relieved Side-Pathway Competition.

Zhou YJ, Buijs NA, Zhu Z, ..., Siewers V, Nielsen J

J. Am. Chem. Soc. 138 (47) 15368-15377 [2016-11-30; online 2016-10-31]

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A stromal cell population in the large intestine identified by tissue factor expression that is lost during colorectal cancer progression.

Eriksson O, Asplund A, Hegde G, ..., Pontén F, Siegbahn A

Thromb. Haemost. 116 (6) 1050-1059 [2016-11-30; online 2016-09-22]

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Identification of Shared and Unique Serum Lipid Profiles in Diabetes Mellitus and Myocardial Infarction.

Kjellqvist S, Klose C, Surma MA, ..., Melander O, Fernandez C

J Am Heart Assoc 5 (12) - [2016-11-29; online 2016-11-29]

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Duplication of chicken defensin7 gene generated by gene conversion and homologous recombination.

Lee MO, Bornelöv S, Andersson L, ..., Chen J, Womack JE

Proc. Natl. Acad. Sci. U.S.A. 113 (48) 13815-13820 [2016-11-29; online 2016-11-14]

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Habitat generalists and specialists in microbial communities across a terrestrial-freshwater gradient.

Monard C, Gantner S, Bertilsson S, Hallin S, Stenlid J

Sci Rep 6 (-) 37719 [2016-11-25; online 2016-11-25]

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DNA methylation patterns associated with oxidative stress in an ageing population.

Hedman ÅK, Zilmer M, Sundström J, Lind L, Ingelsson E

BMC Med Genomics 9 (1) 72 [2016-11-25; online 2016-11-25]

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Towards agile large-scale predictive modelling in drug discovery with flow-based programming design principles.

Lampa S, Alvarsson J, Spjuth O

J Cheminform 8 (-) 67 [2016-11-24; online 2016-11-24]

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Phylogenetic Signals of Salinity and Season in Bacterial Community Composition Across the Salinity Gradient of the Baltic Sea.

Herlemann DP, Lundin D, Andersson AF, Labrenz M, Jürgens K

Front Microbiol 7 (-) 1883 [2016-11-24; online 2016-11-24]

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Editorial: The Impact of Systems Medicine on Human Health and Disease.

Mardinoglu A, Nielsen J

Front. Physiol. 7 (-) 552 [2016-11-24; online 2016-11-24]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Abnormal primary and permanent dentitions with ectodermal symptoms predict WNT10A deficiency.

Bergendal B, Norderyd J, Zhou X, Klar J, Dahl N

BMC Med. Genet. 17 (1) 88 [2016-11-24; online 2016-11-24]

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From comorbidities of chronic obstructive pulmonary disease to identification of shared molecular mechanisms by data integration.

Gomez-Cabrero D, Menche J, Vargas C, ..., Roca J, Synergy-COPD Consortia

BMC Bioinformatics 17 (Suppl 15) 441 [2016-11-22; online 2016-11-22]

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The endosomal transcriptional regulator RNF11 integrates degradation and transport of EGFR.

Scharaw S, Iskar M, Ori A, ..., Bork P, Pepperkok R

J. Cell Biol. 215 (4) 543-558 [2016-11-21; online 2016-11-08]

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Successful transmission and transcriptional deployment of a human chromosome via mouse male meiosis.

Ernst C, Pike J, Aitken SJ, ..., Kutter C, Odom DT

Elife 5 (-) - [2016-11-18; online 2016-11-18]

Affiliated researcher Claudia Kutter SciLifeLab Fellow

DOI Crossref

Microwave Heated Continuous Flow Palladium(II)-Catalyzed Desulfitative Synthesis of Aryl Ketones

Skillinghaug B, Rydfjord J, Sävmarker J, Larhed M

Org. Process Res. Dev. 20 (11) 2005-2011 [2016-11-18; online 2016-11-00]

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ANLN is a prognostic biomarker independent of Ki-67 and essential for cell cycle progression in primary breast cancer.

Magnusson K, Gremel G, Rydén L, ..., Jirström K, Pontén F

BMC Cancer 16 (1) 904 [2016-11-18; online 2016-11-18]

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An automated approach to prepare tissue-derived spatially barcoded RNA-sequencing libraries.

Jemt A, Salmén F, Lundmark A, ..., Yucel-Lindberg T, Lundeberg J

Sci Rep 6 (-) 37137 [2016-11-16; online 2016-11-16]

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PubMed DOI Crossref

Periostin is identified as a putative metastatic marker in breast cancer-derived exosomes.

Vardaki I, Ceder S, Rutishauser D, ..., Foukakis T, Panaretakis T

Oncotarget 7 (46) 74966-74978 [2016-11-15; online 2016-09-03]

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PubMed DOI Crossref

BRCA1-regulated RRM2 expression protects glioblastoma cells from endogenous replication stress and promotes tumorigenicity.

Rasmussen RD, Gajjar MK, Tuckova L, ..., Frederiksen MH, Hamerlik P

Nat Commun 7 (-) 13398 [2016-11-15; online 2016-11-15]

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Adaptive Evolution of Phosphorus Metabolism in Prochlorococcus.

Casey JR, Mardinoglu A, Nielsen J, Karl DM

mSystems 1 (6) - [2016-11-15; online 2016-11-15]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Accelerated cryo-EM structure determination with parallelisation using GPUs in RELION-2.

Kimanius D, Forsberg BO, Scheres SH, Lindahl E

Elife 5 (-) - [2016-11-15; online 2016-11-15]

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Functional and Structural Characterization of a Novel HLA-DRB1*04:01-Restricted α-Enolase T Cell Epitope in Rheumatoid Arthritis.

Gerstner C, Dubnovitsky A, Sandin C, ..., Achour A, Malmström V

Front Immunol 7 (-) 494 [2016-11-14; online 2016-11-14]

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Probing the mechanisms for the selectivity and promiscuity of methyl parathion hydrolase.

Purg M, Pabis A, Baier F, ..., Jackson C, Kamerlin SC

Philos Trans A Math Phys Eng Sci 374 (2080) - [2016-11-13; online 2016-10-05]

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A perspective on bridging scales and design of models using low-dimensional manifolds and data-driven model inference.

Tegnér J, Zenil H, Kiani NA, Ball G, Gomez-Cabrero D

Philos Trans A Math Phys Eng Sci 374 (2080) - [2016-11-13; online 2016-10-05]

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Targeted high-throughput sequencing of candidate genes for chronic obstructive pulmonary disease.

Matsson H, Söderhäll C, Einarsdottir E, ..., Lundbäck B, Klar J

BMC Pulm Med 16 (1) 146 [2016-11-11; online 2016-11-11]

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Probabilistic inference of lateral gene transfer events.

Khan MA, Mahmudi O, Ullah I, Arvestad L, Lagergren J

BMC Bioinformatics 17 (Suppl 14) 431 [2016-11-11; online 2016-11-11]

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PubMed DOI Crossref

The stem osteichthyan Andreolepis and the origin of tooth replacement.

Chen D, Blom H, Sanchez S, Tafforeau P, Ahlberg PE

Nature 539 (7628) 237-241 [2016-11-10; online 2016-10-17]

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PubMed DOI Crossref

Cohort profile: the Finnish Genetics of Pre-eclampsia Consortium (FINNPEC).

Jääskeläinen T, Heinonen S, Kajantie E, ..., Laivuori H, FINNPEC Study Group

BMJ Open 6 (11) e013148 [2016-11-10; online 2016-11-10]

Affiliated researcher

PubMed DOI Crossref

Immunohistochemical Typing of Adenocarcinomas of the Pancreatobiliary System Improves Diagnosis and Prognostic Stratification.

Fernández Moro C, Fernandez-Woodbridge A, Alistair D'souza M, ..., Verbeke C, Bozóky B

PLoS ONE 11 (11) e0166067 [2016-11-09; online 2016-11-09]

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PubMed DOI Crossref

PROX1 is a novel pathway-specific prognostic biomarker for high-grade astrocytomas; results from independent glioblastoma cohorts stratified by age and IDH mutation status.

Roodakker KR, Elsir T, Edqvist PD, ..., Malmström A, Smits A

Oncotarget 7 (45) 72431-72442 [2016-11-08; online 2016-09-15]

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PubMed DOI Crossref

Case-specific potentiation of glioblastoma drugs by pterostilbene.

Schmidt L, Baskaran S, Johansson P, ..., Krona C, Nelander S

Oncotarget 7 (45) 73200-73215 [2016-11-08; online 2016-10-01]

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Looking for Missing Proteins in the Proteome of Human Spermatozoa: An Update.

Vandenbrouck Y, Lane L, Carapito C, ..., Garin J, Pineau C

J. Proteome Res. 15 (11) 3998-4019 [2016-11-04; online 2016-08-23]

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PubMed DOI Crossref

Clonal B-cell lymphocytosis of marginal zone origin.

Xochelli A, Oscier D, Stamatopoulos K

Best Pract Res Clin Haematol 30 (1-2) 77-83 [2016-11-04; online 2016-11-04]

Affiliated researcher

PubMed DOI Crossref

Three-dimensional paleohistology of the scale and median fin spine of Lophosteus superbus (Pander 1856)

Jerve A, Qu Q, Sanchez S, Blom H, Ahlberg PE

PeerJ 4 (-) e2521 [2016-11-02; online 2016-11-02]

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Maps of context-dependent putative regulatory regions and genomic signal interactions.

Diamanti K, Umer HM, Kruczyk M, ..., Wadelius C, Komorowski J

Nucleic Acids Res. 44 (19) 9110-9120 [2016-11-02; online 2016-09-12]

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Tryptophan Metabolism Along the Kynurenine Pathway Downstream of Toll-like Receptor Stimulation in Peripheral Monocytes.

Orhan F, Bhat M, Sandberg K, ..., Erhardt S, Schwieler L

Scand. J. Immunol. 84 (5) 262-271 [2016-11-00; online 2016-10-27]

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PubMed DOI Crossref

The two Dps proteins, NpDps2 and NpDps5, are involved in light-induced oxidative stress tolerance in the N

Moparthi VK, Li X, Vavitsas K, ..., Magnuson A, Stensjö K

Biochim. Biophys. Acta 1857 (11) 1766-1776 [2016-11-00; online 2016-08-12]

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The H3 chaperone function of NASP is conserved in Arabidopsis.

Maksimov V, Nakamura M, Wildhaber T, ..., Bergquist J, Hennig L

Plant J. 88 (3) 425-436 [2016-11-00; online 2016-09-15]

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Synaptic proteins predict cognitive decline in Alzheimer's disease and Lewy body dementia.

Bereczki E, Francis PT, Howlett D, ..., Ballard C, Aarsland D

Alzheimers Dement 12 (11) 1149-1158 [2016-11-00; online 2016-05-22]

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PubMed DOI Crossref

Screening out irrelevant cell-based models of disease.

Horvath P, Aulner N, Bickle M, ..., von Schantz C, Carragher NO

Nat Rev Drug Discov 15 (11) 751-769 [2016-11-00; online 2016-09-12]

Affiliated researcher

DOI Crossref

Remediation and recycling of chromium from tannery wastewater using combined chemical–biological treatment system

Ahmed E, Abdulla HM, Mohamed AH, El-Bassuony AD

Process Safety and Environmental Protection 104 (-) 1-10 [2016-11-00; online 2016-11-00]

Affiliated researcher

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Relating fitness to long-term environmental variations in natura.

Milesi P, Lenormand T, Lagneau C, Weill M, Labbé P

Mol. Ecol. 25 (21) 5483-5499 [2016-11-00; online 2016-10-14]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Rapid Restoration of Vascularity and Oxygenation in Mouse and Human Islets Transplanted to Omentum May Contribute to Their Superior Function Compared to Intraportally Transplanted Islets.

Espes D, Lau J, Quach M, ..., Christoffersson G, Carlsson PO

American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons 16 (11) 3246-3254 [2016-11-00; online 2016-07-22]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Plasma proteomics in CML patients before and after initiation of tyrosine kinase inhibitor therapy reveals induced Th1 immunity and loss of angiogenic stimuli.

Söderlund S, Christiansson L, Persson I, ..., Olsson-Strömberg U, Loskog A

Leuk. Res. 50 (-) 95-103 [2016-11-00; online 2016-09-27]

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Migratory activation of parasitized dendritic cells by the protozoan Toxoplasma gondii 14-3-3 protein.

Weidner JM, Kanatani S, Uchtenhagen H, ..., Achour A, Barragan A

Cell. Microbiol. 18 (11) 1537-1550 [2016-11-00; online 2016-05-06]

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Methane oxidation at the water‐ice interface of an ice‐covered lake

Ricão Canelhas M, Denfeld BA, Weyhenmeyer GA, Bastviken D, Bertilsson S

Limnol. Oceanogr. 61 (S1) S78-S90 [2016-11-00; online 2016-03-29]

Affiliated researcher

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Mass spectrometric analysis of synaptosomal membrane preparations for the determination of brain receptors, transporters and channels.

Sialana FJ, Gulyassy P, Májek P, ..., Bennett KL, Lubec G

Proteomics 16 (22) 2911-2920 [2016-11-00; online 2016-10-21]

Affiliated researcher

PubMed DOI Crossref

MID-PREGNANCY CORTICOTROPIN-RELEASING HORMONE LEVELS IN ASSOCIATION WITH POSTPARTUM DEPRESSIVE SYMPTOMS.

Iliadis SI, Sylvén S, Hellgren C, ..., Sundström Poromaa I, Skalkidou A

Depress Anxiety 33 (11) 1023-1030 [2016-11-00; online 2016-05-27]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Long-term outcome in young women with breast cancer: a population-based study.

Fredholm H, Magnusson K, Lindström LS, ..., Frisell J, Fredriksson I

Breast Cancer Res. Treat. 160 (1) 131-143 [2016-11-00; online 2016-09-13]

Affiliated researcher

PubMed DOI Crossref

Inferring Past Effective Population Size from Distributions of Coalescent Times.

Gattepaille L, Günther T, Jakobsson M

Genetics 204 (3) 1191-1206 [2016-11-00; online 2016-09-16]

Affiliated researcher

PubMed DOI Crossref

High migration rates shape the postglacial history of amphi-Atlantic bryophytes.

Désamoré A, Patiño J, Mardulyn P, ..., Laenen B, Vanderpoorten A

Mol. Ecol. 25 (21) 5568-5584 [2016-11-00; online 2016-10-17]

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Genomic disruption of the histone methyltransferase SETD2 in chronic lymphocytic leukaemia.

Parker H, Rose-Zerilli MJ, Larrayoz M, ..., Oscier DG, Strefford JC

Leukemia 30 (11) 2179-2186 [2016-11-00; online 2016-05-20]

Affiliated researcher

PubMed DOI Crossref

Genome-wide repression of eRNA and target gene loci by the ETV6-RUNX1 fusion in acute leukemia.

Teppo S, Laukkanen S, Liuksiala T, ..., Heinäniemi M, Lohi O

Genome Res. 26 (11) 1468-1477 [2016-11-00; online 2016-09-12]

Affiliated researcher

PubMed DOI Crossref

Genome-wide DNA methylation analysis in multiple tissues in primary Sjögren's syndrome reveals regulatory effects at interferon-induced genes.

Imgenberg-Kreuz J, Sandling JK, Almlöf JC, ..., Syvänen AC, Nordmark G

Ann. Rheum. Dis. 75 (11) 2029-2036 [2016-11-00; online 2016-02-08]

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Generation of human iPS cell line CTL07-II from human fibroblasts, under defined and xeno-free conditions.

Kele M, Day K, Rönnholm H, ..., Dahl N, Falk A

Stem Cell Res 17 (3) 474-478 [2016-11-00; online 2016-09-30]

Affiliated researcher

PubMed DOI Crossref

Fast and Accurate Protein False Discovery Rates on Large-Scale Proteomics Data Sets with Percolator 3.0.

The M, MacCoss MJ, Noble WS, Käll L

J. Am. Soc. Mass Spectrom. 27 (11) 1719-1727 [2016-11-00; online 2016-08-29]

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Extension of diffuse low-grade gliomas beyond radiological borders as shown by the coregistration of histopathological and magnetic resonance imaging data.

Zetterling M, Roodakker KR, Berntsson SG, ..., Larsson EM, Smits A

J. Neurosurg. 125 (5) 1155-1166 [2016-11-00; online 2016-02-26]

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Effects of cigarette smoking on cardiovascular-related protein profiles in two community-based cohort studies.

Huang B, Svensson P, Ärnlöv J, ..., Lind L, Ingelsson E

Atherosclerosis 254 (-) 52-58 [2016-11-00; online 2016-09-15]

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Diet adaptation in dog reflects spread of prehistoric agriculture.

Arendt M, Cairns KM, Ballard JW, Savolainen P, Axelsson E

Heredity (Edinb) 117 (5) 301-306 [2016-11-00; online 2016-07-13]

Affiliated researcher

PubMed DOI Crossref

Corrigendum to "Cardiovascular side-effects and insulin secretion after intravenous administration of radiolabeled Exendin-4 in pigs" [Nucl Med Biol 43 (2016) 397-402].

Rydén A, Nyman G, Nalin L, ..., Eriksson O, Jensen-Waern M

Nucl. Med. Biol. 43 (11) 742 [2016-11-00; online 2016-09-07]

Olof Eriksson SciLifeLab Fellow

DOI Crossref

Biodegradation mechanism of microcystin-LR by a novel isolate of Rhizobium sp. TH and the evolutionary origin of the mlrA gene

Zhu X, Shen Y, Chen X, ..., Tao J, Ling Y

International Biodeterioration & Biodegradation 115 (-) 17-25 [2016-11-00; online 2016-11-00]

Affiliated researcher

PubMed DOI Crossref

Bacillus wiedmannii sp. nov., a psychrotolerant and cytotoxic Bacillus cereus group species isolated from dairy foods and dairy environments.

Miller RA, Beno SM, Kent DJ, ..., Boor KJ, Kovac J

Int. J. Syst. Evol. Microbiol. 66 (11) 4744-4753 [2016-11-00; online 2016-08-12]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Amy2B copy number variation reveals starch diet adaptations in ancient European dogs.

Ollivier M, Tresset A, Bastian F, ..., Hitte C, Hänni C

R Soc Open Sci 3 (11) 160449 [2016-11-00; online 2016-11-09]

Affiliated researcher

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ARAP2 promotes GLUT1-mediated basal glucose uptake through regulation of sphingolipid metabolism.

Chaudhari A, Håversen L, Mobini R, ..., Perkins R, Borén J

Biochim. Biophys. Acta 1861 (11) 1643-1651 [2016-11-00; online 2016-07-27]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Rawcopy: Improved copy number analysis with Affymetrix arrays.

Mayrhofer M, Viklund B, Isaksson A

Sci Rep 6 (-) 36158 [2016-10-31; online 2016-10-31]

Affiliated researcher

PubMed DOI Crossref

Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex.

Vijay N, Bossu CM, Poelstra JW, ..., Kryukov AP, Wolf JB

Nat Commun 7 (-) 13195 [2016-10-31; online 2016-10-31]

Affiliated researcher

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Measurement of serum C-reactive protein concentration for discriminating between suppurative arthritis and osteoarthritis in dogs.

Hillström A, Bylin J, Hagman R, ..., Fall T, Kjelgaard-Hansen M

BMC Vet. Res. 12 (1) 240 [2016-10-28; online 2016-10-28]

Affiliated researcher

PubMed DOI Crossref

Thermodynamics of Nanobody Binding to Lactose Permease.

Hariharan P, Andersson M, Jiang X, ..., Kaback HR, Guan L

Biochemistry 55 (42) 5917-5926 [2016-10-25; online 2016-10-12]

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PubMed DOI Crossref

Mesenchymal state of intimal cells may explain higher propensity to ascending aortic aneurysm in bicuspid aortic valves.

Maleki S, Kjellqvist S, Paloschi V, ..., Eriksson P, Björck HM

Sci Rep 6 (-) 35712 [2016-10-25; online 2016-10-25]

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PubMed DOI Crossref

Allosteric binding site in a Cys-loop receptor ligand-binding domain unveiled in the crystal structure of ELIC in complex with chlorpromazine.

Nys M, Wijckmans E, Farinha A, ..., Lindahl E, Ulens C

Proc. Natl. Acad. Sci. U.S.A. 113 (43) E6696-E6703 [2016-10-25; online 2016-10-10]

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PubMed DOI Crossref

Identification of mutations, gene expression changes and fusion transcripts by whole transcriptome RNAseq in docetaxel resistant prostate cancer cells.

Ma Y, Miao Y, Peng Z, ..., Nilsson S, Li C

Springerplus 5 (1) 1861 [2016-10-24; online 2016-10-24]

Affiliated researcher

PubMed DOI Crossref

Evaluation of Generalized Born Models for Large Scale Affinity Prediction of Cyclodextrin Host-Guest Complexes.

Zhang H, Yin C, Yan H, van der Spoel D

J Chem Inf Model 56 (10) 2080-2092 [2016-10-24; online 2016-10-04]

Affiliated researcher

PubMed DOI Crossref

Cytokine profiling of tumor interstitial fluid of the breast and its relationship with lymphocyte infiltration and clinicopathological characteristics.

Espinoza JA, Jabeen S, Batra R, ..., Kristensen VN, Gromova I

Oncoimmunology 5 (12) e1248015 [2016-10-24; online 2016-10-24]

Affiliated researcher

PubMed DOI Crossref

Structure-Based Screening of Uncharted Chemical Space for Atypical Adenosine Receptor Agonists.

Rodríguez D, Chakraborty S, Warnick E, ..., Jacobson KA, Carlsson J

ACS chemical biology 11 (10) 2763-2772 [2016-10-21; online 2016-08-22]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Integrative analysis of human omics data using biomolecular networks.

Robinson JL, Nielsen J

Mol Biosyst 12 (10) 2953-2964 [2016-10-20; online 2016-08-11]

Affiliated researcher

PubMed DOI Crossref

Gene-specific correlation of RNA and protein levels in human cells and tissues.

Edfors F, Danielsson F, Hallström BM, ..., Forsström B, Uhlén M

Mol Syst Biol 12 (10) 883 [2016-10-20; online 2016-10-20]

Affiliated researcher

PubMed DOI Crossref

Two-Step Mechanism of Cellular Uptake of Cationic Gold Nanoparticles Modified by (16-Mercaptohexadecyl)trimethylammonium Bromide.

Zarska M, Novotny F, Havel F, ..., Proska J, Hodny Z

Bioconjug. Chem. 27 (10) 2558-2574 [2016-10-19; online 2016-09-26]

Affiliated researcher

PubMed DOI Crossref

Aryl Sulfonamide Inhibitors of Insulin-Regulated Aminopeptidase Enhance Spine Density in Primary Hippocampal Neuron Cultures.

Diwakarla S, Nylander E, Grönbladh A, ..., Chai SY, Hallberg M

ACS Chem Neurosci 7 (10) 1383-1392 [2016-10-19; online 2016-08-08]

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Increased Levels of Extracellular Microvesicle Markers and Decreased Levels of Endocytic/Exocytic Proteins in the Alzheimer's Disease Brain.

Musunuri S, Khoonsari PE, Mikus M, ..., Nilsson P, Kultima K

J. Alzheimers Dis. 54 (4) 1671-1686 [2016-10-18; online 2016-10-22]

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FBW7 suppression leads to SOX9 stabilization and increased malignancy in medulloblastoma.

Suryo Rahmanto A, Savov V, Brunner A, ..., Swartling FJ, Sangfelt O

EMBO J. 35 (20) 2192-2212 [2016-10-17; online 2016-09-13]

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Binding of Pollutants to Biomolecules: A Simulation Study.

Yildirim A, Zhang J, Manzetti S, van der Spoel D

Chem. Res. Toxicol. 29 (10) 1679-1688 [2016-10-17; online 2016-09-13]

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PubMed DOI Crossref

Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock.

Bagnoud A, Chourey K, Hettich RL, ..., Schwyn B, Bernier-Latmani R

Nat Commun 7 (-) 12770 [2016-10-14; online 2016-10-14]

Affiliated researcher

PubMed DOI Crossref

Massive and parallel expression profiling using microarrayed single-cell sequencing.

Vickovic S, Ståhl PL, Salmén F, ..., Frisén J, Lundeberg J

Nat Commun 7 (1) 13182 [2016-10-14; online 2016-10-14]

Affiliated researcher Magda Bienko Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

No Association of Coronary Artery Disease with X-Chromosomal Variants in Comprehensive International Meta-Analysis.

Loley C, Alver M, Assimes TL, ..., Erdmann J, König IR

Sci Rep 6 (-) 35278 [2016-10-12; online 2016-10-12]

Affiliated researcher

PubMed DOI Crossref

Single-Cell Transcriptome Profiling of Human Pancreatic Islets in Health and Type 2 Diabetes.

Segerstolpe Å, Palasantza A, Eliasson P, ..., Ämmälä C, Sandberg R

Cell Metab. 24 (4) 593-607 [2016-10-11; online 2016-09-22]

Affiliated researcher

PubMed DOI Crossref

Hydrophobic Clusters Raise the Threshold Hydrophilicity for Insertion of Transmembrane Sequences in Vivo.

Stone TA, Schiller N, Workewych N, von Heijne G, Deber CM

Biochemistry 55 (40) 5772-5779 [2016-10-11; online 2016-09-29]

Affiliated researcher

PubMed DOI Crossref

The structure and diversity of human, animal and environmental resistomes.

Pal C, Bengtsson-Palme J, Kristiansson E, Larsson DG

Microbiome 4 (1) 54 [2016-10-07; online 2016-10-07]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Multidimensional Normalization to Minimize Plate Effects of Suspension Bead Array Data.

Hong MG, Lee W, Nilsson P, Pawitan Y, Schwenk JM

J. Proteome Res. 15 (10) 3473-3480 [2016-10-07; online 2016-09-12]

Affiliated researcher

PubMed DOI Crossref

Picodroplet partitioned whole genome amplification of low biomass samples preserves genomic diversity for metagenomic analysis.

Hammond M, Homa F, Andersson-Svahn H, Ettema TJ, Joensson HN

Microbiome 4 (1) 52 [2016-10-06; online 2016-10-06]

Affiliated researcher

PubMed DOI Crossref

Molecular Diversity of Midbrain Development in Mouse, Human, and Stem Cells.

La Manno G, Gyllborg D, Codeluppi S, ..., Arenas E, Linnarsson S

Cell 167 (2) 566-580.e19 [2016-10-06; online 2016-10-08]

Affiliated researcher

PubMed DOI Crossref

Systems Toxicology: Systematic Approach to Predict Toxicity.

Kiani NA, Shang MM, Tegner J

Curr. Pharm. Des. 22 (46) 6911-6917 [2016-10-05; online 2016-10-05]

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PubMed DOI Crossref

Nematodes join the family of chondroitin sulfate-synthesizing organisms: Identification of an active chondroitin sulfotransferase in Caenorhabditis elegans.

Dierker T, Shao C, Haitina T, ..., Hinas A, Kjellén L

Sci Rep 6 (-) 34662 [2016-10-05; online 2016-10-05]

Affiliated researcher

PubMed DOI Crossref

ProQ3: Improved model quality assessments using Rosetta energy terms.

Uziela K, Shu N, Wallner B, Elofsson A

Sci Rep 6 (-) 33509 [2016-10-04; online 2016-10-04]

Affiliated researcher

PubMed DOI Crossref

Sensitizing ovarian cancer cells to chemotherapy by interfering with pathways that are involved in the formation of cancer stem cells.

Saydaminova K, Strauss R, Xie M, ..., Ding S, Lieber A

Cancer Biol. Ther. 17 (10) 1079-1088 [2016-10-02; online 2016-08-30]

Affiliated researcher

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The human PRD-like homeobox gene LEUTX has a central role in embryo genome activation.

Jouhilahti EM, Madissoon E, Vesterlund L, ..., Katayama S, Kere J

Development 143 (19) 3459-3469 [2016-10-01; online 2016-08-30]

Affiliated researcher

PubMed DOI Crossref

MultiQC: summarize analysis results for multiple tools and samples in a single report.

Ewels P, Magnusson M, Lundin S, Käller M

Bioinformatics 32 (19) 3047-3048 [2016-10-01; online 2016-06-16]

Affiliated researcher

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Association of Adipose Tissue Fatty Acids With Cardiovascular and All-Cause Mortality in Elderly Men.

Iggman D, Ärnlöv J, Cederholm T, Risérus U

JAMA Cardiol 1 (7) 745-753 [2016-10-01; online 2016-10-21]

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Whole-Exome Sequencing Suggests LAMB3 as a Susceptibility Gene for Morbid Obesity.

Jiao H, Kulyté A, Näslund E, ..., Arner P, Dahlman I

Diabetes 65 (10) 2980-2989 [2016-10-00; online 2016-07-18]

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Ultra-High-Throughput Sample Preparation System for Lymphocyte Immunophenotyping Point-of-Care Diagnostics.

Walsh DI, Murthy SK, Russom A

J Lab Autom 21 (5) 706-712 [2016-10-00; online 2016-02-26]

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Trans-ancestry meta-analyses identify rare and common variants associated with blood pressure and hypertension.

Surendran P, Drenos F, Young R, ..., Howson JM, Munroe PB

Nat. Genet. 48 (10) 1151-1161 [2016-10-00; online 2016-09-12]

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The genetics of blood pressure regulation and its target organs from association studies in 342,415 individuals.

Ehret GB, Ferreira T, Chasman DI, ..., Newton-Cheh C, Munroe PB

Nat. Genet. 48 (10) 1171-1184 [2016-10-00; online 2016-09-12]

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The Tyrosine Kinase Inhibitor Imatinib Augments Extracellular Fluid Exchange and Reduces Average Collagen Fibril Diameter in Experimental Carcinoma.

Olsson PO, Gustafsson R, In 't Zandt R, ..., Rubin K, Kalamajski S

Mol. Cancer Ther. 15 (10) 2455-2464 [2016-10-00; online 2016-07-29]

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Soluble CD93 Is Involved in Metabolic Dysregulation but Does Not Influence Carotid Intima-Media Thickness.

Strawbridge RJ, Hilding A, Silveira A, ..., Bäcklund A, IMPROVE Study Group

Diabetes 65 (10) 2888-2899 [2016-10-00; online 2016-09-24]

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Rationale and design of the PREFERS (Preserved and Reduced Ejection Fraction Epidemiological Regional Study) Stockholm heart failure study: an epidemiological regional study in Stockholm county of 2.1 million inhabitants.

Linde C, Eriksson MJ, Hage C, ..., Persson H, Stockholm County/Karolinska Institutet 4D heart failure investigators

Eur. J. Heart Fail. 18 (10) 1287-1297 [2016-10-00; online 2016-07-07]

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Proteomics Suggests a Role for APC-Survivin in Response to Somatostatin Analog Treatment of Neuroendocrine Tumors.

Fotouhi O, Kjellin H, Larsson C, ..., Lehtiö J, Kjellman M

J. Clin. Endocrinol. Metab. 101 (10) 3616-3627 [2016-10-00; online 2016-07-26]

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Open for collaboration: an academic platform for drug discovery and development at SciLifeLab.

Arvidsson PI, Sandberg K, Forsberg-Nilsson K

Drug Discov. Today 21 (10) 1690-1698 [2016-10-00; online 2016-06-29]

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Non-targeted metabolomics combined with genetic analyses identifies bile acid synthesis and phospholipid metabolism as being associated with incident type 2 diabetes.

Fall T, Salihovic S, Brandmaier S, ..., Ingelsson E, Lind L

Diabetologia 59 (10) 2114-2124 [2016-10-00; online 2016-07-12]

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New insights into the history of domesticated and wild apricots and its contribution to Plum pox virus resistance.

Decroocq S, Cornille A, Tricon D, ..., Giraud T, Decroocq V

Mol. Ecol. 25 (19) 4712-4729 [2016-10-00; online 2016-09-06]

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Mutations in HECW2 are associated with intellectual disability and epilepsy.

Halvardson J, Zhao JJ, Zaghlool A, ..., Thuresson AC, Feuk L

J. Med. Genet. 53 (10) 697-704 [2016-10-00; online 2016-06-22]

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Multiplexed next-generation sequencing and de novo assembly to obtain near full-length HIV-1 genome from plasma virus.

Aralaguppe SG, Siddik AB, Manickam A, ..., Sonnerborg A, Neogi U

J. Virol. Methods 236 (-) 98-104 [2016-10-00; online 2016-07-19]

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Metabolomic Quality Assessment of EDTA Plasma and Serum Samples.

Malm L, Tybring G, Moritz T, Landin B, Galli J

Biopreserv Biobank 14 (5) 416-423 [2016-10-00; online 2016-06-27]

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Mechanisms and regulation of endothelial VEGF receptor signalling.

Simons M, Gordon E, Claesson-Welsh L

Nat. Rev. Mol. Cell Biol. 17 (10) 611-625 [2016-10-00; online 2016-07-27]

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Influence of APOE Gene Polymorphism on Interindividual and Interethnic Warfarin Dosage Requirement: A Systematic Review and Meta-Analysis.

Yu WY, Sun X, Wadelius M, ..., Ma WL, Yang GP

Cardiovasc Ther 34 (5) 297-307 [2016-10-00; online 2016-04-12]

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Identification of autoimmune polyendocrine syndrome type 1 in patients with isolated hypoparathyroidism.

Sahoo SK, Zaidi G, Srivastava R, ..., Aggarwal R, Bhatia E

Clin. Endocrinol. (Oxf) 85 (4) 544-550 [2016-10-00; online 2016-06-28]

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Genome-Wide Association Study of the Modified Stumvoll Insulin Sensitivity Index Identifies BCL2 and FAM19A2 as Novel Insulin Sensitivity Loci.

Walford GA, Gustafsson S, Rybin D, ..., Ingelsson E, Florez JC

Diabetes 65 (10) 3200-3211 [2016-10-00; online 2016-07-14]

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Generation and analyses of human synthetic antibody libraries and their application for protein microarrays.

Säll A, Walle M, Wingren C, ..., Borrebaeck CAK, Persson H

Protein Eng. Des. Sel. 29 (10) 427-437 [2016-10-00; online 2016-09-01]

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Functional Metabolomics Describes the Yeast Biosynthetic Regulome

Mülleder M, Calvani E, Alam MT, ..., Zelezniak A, Ralser M

Cell 167 (2) 553-565.e12 [2016-10-00; online 2016-10-00]

Aleksej Zelezniak SciLifeLab Fellow

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Elevated Basal Insulin Secretion in Type 2 Diabetes Caused by Reduced Plasma Membrane Cholesterol.

Nagaraj V, Kazim AS, Helgeson J, ..., Zhang E, Renström E

Mol. Endocrinol. 30 (10) 1059-1069 [2016-10-00; online 2016-08-17]

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Effects of multiple dimensions of bacterial diversity on functioning, stability and multifunctionality.

Roger F, Bertilsson S, Langenheder S, Osman OA, Gamfeldt L

Ecology 97 (10) 2716-2728 [2016-10-00; online 2016-09-15]

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Effect of Insulin Resistance on Monounsaturated Fatty Acid Levels: A Multi-cohort Non-targeted Metabolomics and Mendelian Randomization Study.

Nowak C, Salihovic S, Ganna A, ..., Ingelsson E, Fall T

PLoS Genet 12 (10) e1006379 [2016-10-00; online 2016-10-21]

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DNA methylome analysis of acute lymphoblastic leukemia cells reveals stochastic de novo DNA methylation in CpG islands.

Wahlberg P, Lundmark A, Nordlund J, ..., Lönnerholm G, Syvänen AC

Epigenomics 8 (10) 1367-1387 [2016-10-00; online 2016-08-23]

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Cystatin C-based glomerular filtration rate associates more closely with mortality than creatinine-based or combined glomerular filtration rate equations in unselected patients.

Helmersson-Karlqvist J, Ärnlöv J, Larsson A

Eur J Prev Cardiol 23 (15) 1649-1657 [2016-10-00; online 2016-04-01]

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Cost-effectiveness of pharmacogenetic-guided dosing of warfarin in the United Kingdom and Sweden.

Verhoef TI, Redekop WK, Langenskiold S, ..., Hughes DA, Pirmohamed M

Pharmacogenomics J. 16 (5) 478-484 [2016-10-00; online 2016-06-07]

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Connectivity to the surface determines diversity patterns in subsurface aquifers of the Fennoscandian shield.

Hubalek V, Wu X, Eiler A, ..., Bertilsson S, Ionescu D

ISME J 10 (10) 2447-2458 [2016-10-00; online 2016-03-29]

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Circulating levels of perfluoroalkyl substances are associated with dietary patterns - A cross sectional study in elderly Swedish men and women.

Sjogren P, Montse R, Lampa E, ..., Lind L, Lind PM

Environ. Res. 150 (-) 59-65 [2016-10-00; online 2016-05-27]

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Changes in serum levels of perfluoroalkyl substances during a 10-year follow-up period in a large population-based cohort.

Stubleski J, Salihovic S, Lind L, ..., van Bavel B, Kärrman A

Environ Int 95 (-) 86-92 [2016-10-00; online 2016-08-16]

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Cause and consequences of the activated type I interferon system in SLE.

Eloranta ML, Rönnblom L

J. Mol. Med. 94 (10) 1103-1110 [2016-10-00; online 2016-04-20]

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Biophysics in drug discovery: impact, challenges and opportunities.

Renaud JP, Chung CW, Danielson UH, ..., Hubbard RE, Nar H

Nat Rev Drug Discov 15 (10) 679-698 [2016-10-00; online 2016-08-12]

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Autoantibodies Targeting a Collecting Duct-Specific Water Channel in Tubulointerstitial Nephritis.

Landegren N, Pourmousa Lindberg M, Skov J, ..., Fenton RA, Kämpe O

J. Am. Soc. Nephrol. 27 (10) 3220-3228 [2016-10-00; online 2016-03-16]

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Associations between the FKBP5 haplotype, exposure to violence and anxiety in females.

Isaksson J, Comasco E, Åslund C, ..., Andershed H, Nilsson KW

Psychoneuroendocrinology 72 (-) 196-204 [2016-10-00; online 2016-07-15]

Erika Comasco SciLifeLab Fellow

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An introduction to plant phylogenomics with a focus on palms

Barrett CF, Bacon CD, Antonelli A, Cano Á, Hofmann T

Bot. J. Linn. Soc. 182 (2) 234-255 [2016-10-00; online 2016-03-18]

DDLS Fellow Tobias Andermann

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A proposal for validation of antibodies.

Uhlen M, Bandrowski A, Carr S, ..., Snyder M, Yamamoto T

Nat. Methods 13 (10) 823-827 [2016-10-00; online 2016-09-05]

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Gemcitabine reduces MDSCs, tregs and TGFβ-1 while restoring the teff/treg ratio in patients with pancreatic cancer.

Eriksson E, Wenthe J, Irenaeus S, Loskog A, Ullenhag G

J Transl Med 14 (1) 282 [2016-09-29; online 2016-09-29]

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Detecting individual extracellular vesicles using a multicolor in situ proximity ligation assay with flow cytometric readout.

Löf L, Ebai T, Dubois L, ..., Landegren U, Kamali-Moghaddam M

Sci Rep 6 (-) 34358 [2016-09-29; online 2016-09-29]

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Analysis of Body-wide Unfractionated Tissue Data to Identify a Core Human Endothelial Transcriptome.

Butler LM, Hallström BM, Fagerberg L, ..., Renné T, Odeberg J

Cell Systems 3 (3) 287-301.e3 [2016-09-28; online 2016-09-15]

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Transforming growth factor β as regulator of cancer stemness and metastasis.

Bellomo C, Caja L, Moustakas A

Br. J. Cancer 115 (7) 761-769 [2016-09-27; online 2016-08-18]

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Deep targeted sequencing in pediatric acute lymphoblastic leukemia unveils distinct mutational patterns between genetic subtypes and novel relapse-associated genes.

Lindqvist CM, Lundmark A, Nordlund J, ..., Berglund EC, Syvänen AC

Oncotarget 7 (39) 64071-64088 [2016-09-27; online 2016-09-04]

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Genome-wide association and replication study of anti-tuberculosis drugs-induced liver toxicity.

Petros Z, Lee MM, Takahashi A, ..., Kubo M, Aklillu E

BMC Genomics 17 (1) 755 [2016-09-26; online 2016-09-26]

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Annotating public fungal ITS sequences from the built environment according to the MIxS-Built Environment standard – a report from a May 23-24, 2016 workshop (Gothenburg, Sweden)

Abarenkov K, Adams RI, Laszlo I, ..., Schriml L, Nilsson RH

MykoKeys 16 (-) 1-15 [2016-09-26; online 2016-09-26]

DDLS Fellow Johan Bengtsson-Palme

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Exploration of high-density protein microarrays for antibody validation and autoimmunity profiling.

Sjöberg R, Mattsson C, Andersson E, ..., Ayoglu B, Nilsson P

N Biotechnol 33 (5 Pt A) 582-592 [2016-09-25; online 2015-09-28]

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Advancing the global proteome survey platform by using an oriented single chain antibody fragment immobilization approach.

Säll A, Persson H, Ohlin M, Borrebaeck CA, Wingren C

N Biotechnol 33 (5 Pt A) 503-513 [2016-09-25; online 2015-12-15]

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"Smart" drug loaded nanoparticle delivery from a self-healing hydrogel enabled by dynamic magnesium-biopolymer chemistry.

Shi L, Han Y, Hilborn J, Ossipov D

Chem. Commun. (Camb.) 52 (74) 11151-11154 [2016-09-25; online 2016-08-23]

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Overlap in serum metabolic profiles between non-related diseases: Implications for LC-MS metabolomics biomarker discovery.

Lindahl A, Forshed J, Nordström A

Biochem. Biophys. Res. Commun. 478 (3) 1472-1477 [2016-09-23; online 2016-08-28]

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A global genetic interaction network maps a wiring diagram of cellular function.

Costanzo M, VanderSluis B, Koch EN, ..., Andrews B, Boone C

Science (New York, N.Y.) 353 (6306) aaf1420-aaf1420 [2016-09-23; online 2016-10-07]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

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The Oncolytic Efficacy and in Vivo Pharmacokinetics of [2-(4-Chlorophenyl)quinolin-4-yl](piperidine-2-yl)methanol (Vacquinol-1) Are Governed by Distinct Stereochemical Features.

Hammarström LG, Harmel RK, Granath M, ..., Lehmann F, Ernfors P

J. Med. Chem. 59 (18) 8577-8592 [2016-09-22; online 2016-09-08]

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RNA-binding motif protein 47 inhibits Nrf2 activity to suppress tumor growth in lung adenocarcinoma.

Sakurai T, Isogaya K, Sakai S, ..., Miyazono K, Koinuma D

Oncogene 35 (38) 5000-5009 [2016-09-22; online 2016-02-29]

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NETosis in Cancer - Platelet-Neutrophil Crosstalk Promotes Tumor-Associated Pathology.

Olsson AK, Cedervall J

Front Immunol 7 (-) 373 [2016-09-21; online 2016-09-21]

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Large-scale calculations of gas phase thermochemistry: Enthalpy of formation, standard entropy, and heat capacity

Ghahremanpour MM, van Maaren PJ, Ditz JC, Lindh R, van der Spoel D

The Journal of Chemical Physics 145 (11) 114305 [2016-09-21; online 2016-09-21]

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WD40 domain of Apc1 is critical for the coactivator-induced allosteric transition that stimulates APC/C catalytic activity.

Li Q, Chang L, Aibara S, ..., Zhang Z, Barford D

Proc. Natl. Acad. Sci. U.S.A. 113 (38) 10547-10552 [2016-09-20; online 2016-09-06]

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The Number of Stenotic Intracranial Arteries Is Independently Associated with Ischemic Stroke Severity.

Wei X, Liu Z, Li M, ..., Wang B, Mi J

PLoS ONE 11 (9) e0163356 [2016-09-20; online 2016-09-20]

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Targeting an Aromatic Hotspot in Plasmodium falciparum 1-Deoxy-d-xylulose-5-phosphate Reductoisomerase with β-Arylpropyl Analogues of Fosmidomycin.

Sooriyaarachchi S, Chofor R, Risseeuw MD, ..., Van Calenbergh S, Mowbray SL

ChemMedChem 11 (18) 2024-2036 [2016-09-20; online 2016-08-03]

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Pharmacokinetic considerations of nanodelivery to the brain: Using modeling and simulations to predict the outcome of liposomal formulations.

Lindqvist A, Fridén M, Hammarlund-Udenaes M

Eur J Pharm Sci 92 (-) 173-182 [2016-09-20; online 2016-07-05]

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Energetics of side-chain snorkeling in transmembrane helices probed by nonproteinogenic amino acids.

Öjemalm K, Higuchi T, Lara P, ..., Suga H, von Heijne G

Proc. Natl. Acad. Sci. U.S.A. 113 (38) 10559-10564 [2016-09-20; online 2016-09-06]

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Multiplexed, targeted profiling of single-cell proteomes and transcriptomes in a single reaction.

Genshaft AS, Li S, Gallant CJ, ..., Landegren U, Shalek AK

Genome Biol. 17 (1) 188 [2016-09-19; online 2016-09-19]

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Functional and Structural Consequences of Nine

de Paula Michelatto D, Karlsson L, Lusa AL, ..., de Mello MP, Lajic S

Int J Endocrinol 2016 (-) 4209670 [2016-09-19; online 2016-09-19]

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Investigation of rare and low-frequency variants using high-throughput sequencing with pooled DNA samples.

Wang J, Skoog T, Einarsdottir E, ..., Kere J, Jiao H

Sci Rep 6 (-) 33256 [2016-09-16; online 2016-09-16]

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XMetDB: an open access database for xenobiotic metabolism.

Spjuth O, Rydberg P, Willighagen EL, Evelo CT, Jeliazkova N

J Cheminform 8 (-) 47 [2016-09-15; online 2016-09-15]

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Subcellular fractionation of human liver reveals limits in global proteomic quantification from isolated fractions.

Wiśniewski JR, Wegler C, Artursson P

Anal. Biochem. 509 (-) 82-88 [2016-09-15; online 2016-06-14]

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NUDT15 Hydrolyzes 6-Thio-DeoxyGTP to Mediate the Anticancer Efficacy of 6-Thioguanine.

Valerie NC, Hagenkort A, Page BD, ..., Jemth AS, Helleday T

Cancer Res. 76 (18) 5501-5511 [2016-09-15; online 2016-08-16]

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Life history of the stem tetrapod Acanthostega revealed by synchrotron microtomography.

Sanchez S, Tafforeau P, Clack JA, Ahlberg PE

Nature 537 (7620) 408-411 [2016-09-15; online 2016-09-07]

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IL-15 activates mTOR and primes stress-activated gene expression leading to prolonged antitumor capacity of NK cells.

Mao Y, van Hoef V, Zhang X, ..., Kiessling R, Lundqvist A

Blood 128 (11) 1475-1489 [2016-09-15; online 2016-07-27]

Affiliated researcher SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

Analysis with the exome array identifies multiple new independent variants in lipid loci.

Kanoni S, Masca NG, Stirrups KE, ..., Samani NJ, Deloukas P

Hum. Mol. Genet. 25 (18) 4094-4106 [2016-09-15; online 2016-07-27]

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Targeting the kinase activities of ATR and ATM exhibits antitumoral activity in mouse models of MLL-rearranged AML.

Morgado-Palacin I, Day A, Murga M, ..., Nussenzweig A, Fernandez-Capetillo O

Sci Signal 9 (445) ra91 [2016-09-13; online 2016-09-13]

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Immunoseq: the identification of functionally relevant variants through targeted capture and sequencing of active regulatory regions in human immune cells.

Morin A, Kwan T, Ge B, ..., Lathrop MG, Pastinen T

BMC Med Genomics 9 (1) 59 [2016-09-13; online 2016-09-13]

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Efficacy of ATR inhibitors as single agents in Ewing sarcoma.

Nieto-Soler M, Morgado-Palacin I, Lafarga V, ..., Nussenzweig A, Fernandez-Capetillo O

Oncotarget 7 (37) 58759-58767 [2016-09-13; online 2016-09-01]

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Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing.

Ferreira PG, Oti M, Barann M, ..., Guigó R, Sammeth M

Sci Rep 6 (1) 32406 [2016-09-12; online 2016-09-12]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

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Efficient Integration of Coupled Electrical-Chemical Systems in Multiscale Neuronal Simulations.

Brocke E, Bhalla US, Djurfeldt M, Hellgren Kotaleski J, Hanke M

Front Comput Neurosci 10 (-) 97 [2016-09-12; online 2016-09-12]

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The helical structure of DNA facilitates binding

Berg OG, Mahmutovic A, Marklund E, Elf J

J. Phys. A: Math. Theor. 49 (36) 364002 [2016-09-09; online 2016-08-16]

Affiliated researcher Emil Marklund SciLifeLab Fellow

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Regulation of myeloid cells by activated T cells determines the efficacy of PD-1 blockade.

Eissler N, Mao Y, Brodin D, ..., Kiessling R, Kogner P

Oncoimmunology 5 (12) e1232222 [2016-09-09; online 2016-09-09]

Affiliated researcher SciLifeLab Fellow Yumeng Mao

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Enhancing Endosomal Escape for Intracellular Delivery of Macromolecular Biologic Therapeutics.

Lönn P, Kacsinta AD, Cui XS, ..., Gogoi K, Dowdy SF

Sci Rep 6 (-) 32301 [2016-09-08; online 2016-09-08]

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NDST2 (N-Deacetylase/N-Sulfotransferase-2) Enzyme Regulates Heparan Sulfate Chain Length.

Deligny A, Dierker T, Dagälv A, ..., Merry CLR, Kjellén L

J. Biol. Chem. 291 (36) 18600-18607 [2016-09-02; online 2016-07-07]

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Trans-ethnic Fine Mapping Highlights Kidney-Function Genes Linked to Salt Sensitivity.

Mahajan A, Rodan AR, Le TH, ..., Morris AP, Franceschini N

Am. J. Hum. Genet. 99 (3) 636-646 [2016-09-01; online 2016-09-03]

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The BR domain of PsrP interacts with extracellular DNA to promote bacterial aggregation; structural insights into pneumococcal biofilm formation.

Schulte T, Mikaelsson C, Beaussart A, ..., Nygren PÅ, Achour A

Sci Rep 6 (-) 32371 [2016-09-01; online 2016-09-01]

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PRED-TMBB2: improved topology prediction and detection of beta-barrel outer membrane proteins.

Tsirigos KD, Elofsson A, Bagos PG

Bioinformatics 32 (17) i665-i671 [2016-09-01; online 2016-09-03]

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POLD3 Is Haploinsufficient for DNA Replication in Mice.

Murga M, Lecona E, Kamileri I, ..., Halazonetis TD, Fernandez-Capetillo O

Mol. Cell 63 (5) 877-883 [2016-09-01; online 2016-08-11]

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Drug response prediction by inferring pathway-response associations with kernelized Bayesian matrix factorization.

Ammad-Ud-Din M, Khan SA, Malani D, ..., Aittokallio T, Kaski S

Bioinformatics 32 (17) i455-i463 [2016-09-01; online 2016-09-03]

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Benchmarking the next generation of homology inference tools.

Saripella GV, Sonnhammer EL, Forslund K

Bioinformatics 32 (17) 2636-2641 [2016-09-01; online 2016-06-01]

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Absence of the Autophagy Adaptor SQSTM1/p62 Causes Childhood-Onset Neurodegeneration with Ataxia, Dystonia, and Gaze Palsy.

Haack TB, Ignatius E, Calvo-Garrido J, ..., Carroll CJ, Klopstock T

Am. J. Hum. Genet. 99 (3) 735-743 [2016-09-01; online 2016-08-18]

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A novel variant in MYLK causes thoracic aortic dissections: genotypic and phenotypic description.

Hannuksela M, Stattin EL, Klar J, ..., Sörensen K, Carlberg B

BMC Med. Genet. 17 (1) 61 [2016-09-01; online 2016-09-01]

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Use of BODIPY-Cholesterol (TF-Chol) for Visualizing Lysosomal Cholesterol Accumulation.

Hölttä-Vuori M, Sezgin E, Eggeling C, Ikonen E

Traffic 17 (9) 1054-1057 [2016-09-00; online 2016-06-13]

Erdinc Sezgin SciLifeLab Fellow

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Tissue microarray profiling in human heart failure.

Lal S, Nguyen L, Tezone R, ..., Li A, Dos Remedios C

Proteomics 16 (17) 2319-2326 [2016-09-00; online 2016-08-11]

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The crystal structure of the major pneumococcal autolysin LytA in complex with a large peptidoglycan fragment reveals the pivotal role of glycans for lytic activity.

Sandalova T, Lee M, Henriques-Normark B, ..., Mellroth P, Achour A

Mol. Microbiol. 101 (6) 954-967 [2016-09-00; online 2016-07-05]

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The Sac3 TPR-like region in the Saccharomyces cerevisiae TREX-2 complex is more extensive but independent of the CID region.

Aibara S, Bai XC, Stewart M

J. Struct. Biol. 195 (3) 316-324 [2016-09-00; online 2016-07-12]

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The Impact of Endurance Training on Human Skeletal Muscle Memory, Global Isoform Expression and Novel Transcripts.

Lindholm ME, Giacomello S, Werne Solnestam B, ..., Kjellqvist S, Sundberg CJ

PLoS Genet 12 (9) e1006294 [2016-09-00; online 2016-09-22]

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Strategies to improve usability and preserve accuracy in biological sequence databases.

Bengtsson-Palme J, Boulund F, Edström R, ..., Sanli K, Thorell K

Proteomics 16 (18) 2454-2460 [2016-09-00; online 2016-08-17]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Role of DARPP-32 and ARPP-21 in the Emergence of Temporal Constraints on Striatal Calcium and Dopamine Integration.

Nair AG, Bhalla US, Hellgren Kotaleski J

PLoS Comput Biol 12 (9) e1005080 [2016-09-00; online 2016-09-01]

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Repeated LPS Injection Induces Distinct Changes in the Kynurenine Pathway in Mice.

Larsson MK, Faka A, Bhat M, ..., Schwieler L, Erhardt S

Neurochem. Res. 41 (9) 2243-2255 [2016-09-00; online 2016-05-10]

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Proteomic Screening and Lasso Regression Reveal Differential Signaling in Insulin and Insulin-like Growth Factor I (IGF1) Pathways.

Erdem C, Nagle AM, Casa AJ, ..., Lee AV, Lezon TR

Mol. Cell Proteomics 15 (9) 3045-3057 [2016-09-00; online 2016-06-30]

Cemal Erdem DDLS Fellow

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Protein profiles of CCL5, HPGDS, and NPSR1 in plasma reveal association with childhood asthma.

Hamsten C, Häggmark A, Grundström J, ..., Nilsson P, van Hage M

Allergy 71 (9) 1357-1361 [2016-09-00; online 2016-05-25]

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Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters.

Chen Y, Pai AA, Herudek J, ..., Jensen TH, Sandelin A

Nat. Genet. 48 (9) 984-994 [2016-09-00; online 2016-07-25]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

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Positron Emission Tomography to Assess the Outcome of Intraportal Islet Transplantation.

Eriksson O, Selvaraju R, Eich T, ..., Lundgren T, Korsgren O

Diabetes 65 (9) 2482-2489 [2016-09-00; online 2016-06-20]

Olof Eriksson SciLifeLab Fellow

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Platelet-derived growth factor (PDGF)-induced activation of Erk5 MAP-kinase is dependent on Mekk2, Mek1/2, PKC and PI3-kinase, and affects BMP signaling.

Tsioumpekou M, Papadopoulos N, Burovic F, Heldin CH, Lennartsson J

Cell. Signal. 28 (9) 1422-1431 [2016-09-00; online 2016-06-21]

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Phenotypic Modulation of Smooth Muscle Cells in Atherosclerosis Is Associated With Downregulation of LMOD1, SYNPO2, PDLIM7, PLN, and SYNM.

Perisic Matic L, Rykaczewska U, Razuvaev A, ..., Hamsten A, Hedin U

Arterioscler. Thromb. Vasc. Biol. 36 (9) 1947-1961 [2016-09-00; online 2016-07-28]

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Pancreatic perfusion and subsequent response to glucose in healthy individuals and patients with type 1 diabetes.

Carlbom L, Espes D, Lubberink M, ..., Ahlström H, Carlsson PO

Diabetologia 59 (9) 1968-1972 [2016-09-00; online 2016-06-16]

Olof Eriksson SciLifeLab Fellow

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Oleate protects beta-cells from the toxic effect of palmitate by activating pro-survival pathways of the ER stress response.

Sargsyan E, Artemenko K, Manukyan L, Bergquist J, Bergsten P

Biochim. Biophys. Acta 1861 (9 Pt A) 1151-1160 [2016-09-00; online 2016-06-22]

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Microscale decoupling of sediment oxygen consumption and microbial biomass in an oligotrophic lake

Jeske JT, Müller RA, Wendeberg A, Bertilsson S

Freshw Biol 61 (9) 1477-1491 [2016-09-00; online 2016-06-17]

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Is low molecular weight hyaluronan an early indicator of disease in avian systemic sclerosis?

Kerje S, Hellman U, Do L, ..., Engström-Laurent A, Lindqvist U

Connect. Tissue Res. 57 (5) 337-346 [2016-09-00; online 2016-05-02]

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Integrated Strategy for Use of Positron Emission Tomography in Nonhuman Primates to Confirm Multitarget Occupancy of Novel Psychotropic Drugs: An Example with AZD3676.

Varnäs K, Juréus A, Johnström P, ..., Afzelius L, Farde L

J. Pharmacol. Exp. Ther. 358 (3) 464-471 [2016-09-00; online 2016-07-11]

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Human macrophages induce CD4(+)Foxp3(+) regulatory T cells via binding and re-release of TGF-β.

Schmidt A, Zhang XM, Joshi RN, ..., Harris RA, Tegnér J

Immunol. Cell Biol. 94 (8) 747-762 [2016-09-00; online 2016-05-10]

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How to talk about protein-level false discovery rates in shotgun proteomics.

The M, Tasnim A, Käll L

Proteomics 16 (18) 2461-2469 [2016-09-00; online 2016-08-10]

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Gender transition affects neural correlates of empathy: A resting state functional connectivity study with ultra high-field 7T MR imaging.

Spies M, Hahn A, Kranz GS, ..., Kasper S, Lanzenberger R

NeuroImage 138 (-) 257-265 [2016-09-00; online 2016-05-26]

Erika Comasco SciLifeLab Fellow

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Functional Relationship between a Dinoflagellate Host and Its Diatom Endosymbiont.

Hehenberger E, Burki F, Kolisko M, Keeling PJ

Mol. Biol. Evol. 33 (9) 2376-2390 [2016-09-00; online 2016-06-13]

Affiliated researcher Fabien Burki SciLifeLab Fellow

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Exploring the role of neuropeptide S in the regulation of arousal: a functional anatomical study.

Adori C, Barde S, Vas S, ..., Bagdy G, Hökfelt T

Brain Struct Funct 221 (7) 3521-3546 [2016-09-00; online 2015-10-13]

Affiliated researcher

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Exploratory study of the association of steroid profiles in stimulated ovarian follicular fluid with outcomes of IVF treatment.

Kushnir MM, Naessén T, Wanggren K, ..., Meikle AW, Bergquist J

J. Steroid Biochem. Mol. Biol. 162 (-) 126-133 [2016-09-00; online 2015-09-24]

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Conformation Traits and Gaits in the Icelandic Horse are Associated with Genetic Variants in Myostatin (MSTN).

François L, Jäderkvist Fegraeus K, Eriksson S, ..., Lindgren G, Velie BD

J. Hered. 107 (5) 431-437 [2016-09-00; online 2016-05-13]

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Comparative anatomical distribution of neuronal calcium-binding protein (NECAB) 1 and -2 in rodent and human spinal cord.

Zhang MD, Barde S, Szodorai E, ..., Harkany T, Hökfelt T

Brain Struct Funct 221 (7) 3803-3823 [2016-09-00; online 2016-02-02]

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Comparative analyses of quaternary arrangements in homo-oligomeric proteins in superfamilies: Functional implications.

Sudha G, Srinivasan N

Proteins 84 (9) 1190-1202 [2016-09-00; online 2016-06-08]

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Clinical impact of recurrently mutated genes on lymphoma diagnostics: state-of-the-art and beyond.

Rosenquist R, Rosenwald A, Du MQ, ..., Stamatopoulos K, European Research Initiative on CLL (ERIC) and the European Association for Haematopathology (EAHP)

Haematologica 101 (9) 1002-1009 [2016-09-00; online 2016-09-02]

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Chondrocytes Derived From Mesenchymal Stromal Cells and Induced Pluripotent Cells of Patients With Familial Osteochondritis Dissecans Exhibit an Endoplasmic Reticulum Stress Response and Defective Matrix Assembly.

Xu M, Stattin EL, Shaw G, ..., Murphy M, Barry F

Stem Cells Transl Med 5 (9) 1171-1181 [2016-09-00; online 2016-07-07]

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Benchmarking of algorithms for 3D tissue reconstruction

Kartasalo K, Latonen L, Visakorpi T, Nykter M, Ruusuvuori P

- - (-) 2360-2364 [2016-09-00; online 2016-09-00]

DDLS Fellow Kimmo Kartasalo

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Autoantibody targets in vaccine-associated narcolepsy.

Häggmark-Månberg A, Zandian A, Forsström B, ..., Olsson T, Nilsson P

Autoimmunity 49 (6) 421-433 [2016-09-00; online 2016-05-20]

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Activated T cells enhance interferon-α production by plasmacytoid dendritic cells stimulated with RNA-containing immune complexes.

Leonard D, Eloranta ML, Hagberg N, ..., Alm G, Rönnblom L

Ann. Rheum. Dis. 75 (9) 1728-1734 [2016-09-00; online 2015-10-22]

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A software tool for studying the size and shape of human cardiomyocytes

Rasku J, Ojala M, Pölönen RP, ..., Aalto-Setälä K, Juhola M

Biomedical Signal Processing and Control 30 (-) 134-139 [2016-09-00; online 2016-09-00]

DDLS Fellow Kimmo Kartasalo

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A Significant Regulatory Mutation Burden at a High-Affinity Position of the CTCF Motif in Gastrointestinal Cancers.

Umer HM, Cavalli M, Dabrowski MJ, ..., Komorowski J, Wadelius C

Hum. Mutat. 37 (9) 904-913 [2016-09-00; online 2016-06-02]

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A Role for the Chromatin-Remodeling Factor BAZ1A in Neurodevelopment.

Zaghlool A, Halvardson J, Zhao JJ, ..., Thuresson AC, Feuk L

Hum. Mutat. 37 (9) 964-975 [2016-09-00; online 2016-07-08]

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A Rickettsiales symbiont of amoebae with ancient features.

Schulz F, Martijn J, Wascher F, ..., Ettema TJ, Horn M

Environ. Microbiol. 18 (8) 2326-2342 [2016-09-00; online 2015-06-05]

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Origin of the U87MG glioma cell line: Good news and bad news.

Allen M, Bjerke M, Edlund H, Nelander S, Westermark B

Sci Transl Med 8 (354) 354re3 [2016-08-31; online 2016-09-02]

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The Adipose Transcriptional Response to Insulin Is Determined by Obesity, Not Insulin Sensitivity.

Rydén M, Hrydziuszko O, Mileti E, ..., Daub CO, Arner P

Cell Reports 16 (9) 2317-2326 [2016-08-30; online 2016-08-18]

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Cystatin C and Cardiovascular Disease: A Mendelian Randomization Study.

van der Laan SW, Fall T, Soumaré A, ..., Holmes MV, Asselbergs FW

J. Am. Coll. Cardiol. 68 (9) 934-945 [2016-08-30; online 2016-08-27]

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High sensitivity isoelectric focusing to establish a signaling biomarker for the diagnosis of human colorectal cancer.

Padhan N, Nordling TE, Sundström M, ..., Nelander S, Claesson-Welsh L

BMC Cancer 16 (1) 683 [2016-08-25; online 2016-08-25]

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The Competing Mechanisms of Phosphate Monoester Dianion Hydrolysis.

Duarte F, Barrozo A, Åqvist J, Williams NH, Kamerlin SC

J. Am. Chem. Soc. 138 (33) 10664-10673 [2016-08-24; online 2016-08-15]

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Enantioselective Organocatalyzed Transformations of β-Ketoesters.

Govender T, Arvidsson PI, Maguire GE, Kruger HG, Naicker T

Chem. Rev. 116 (16) 9375-9437 [2016-08-24; online 2016-07-27]

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An RGS2 3'UTR polymorphism is associated with preeclampsia in overweight women.

Karppanen T, Kaartokallio T, Klemetti MM, ..., Staff AC, Laivuori H

BMC Genet. 17 (1) 121 [2016-08-24; online 2016-08-24]

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Visualizing the Nonhomogeneous Structure of RAD51 Filaments Using Nanofluidic Channels.

Fornander LH, Frykholm K, Fritzsche J, ..., Modesti M, Westerlund F

Langmuir 32 (33) 8403-8412 [2016-08-23; online 2016-08-12]

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Tumor growth accelerated by chemotherapy-induced senescent cells is suppressed by treatment with IL-12 producing cellular vaccines.

Simova J, Sapega O, Imrichova T, ..., Hodny Z, Reinis M

Oncotarget 7 (34) 54952-54964 [2016-08-23; online 2016-07-28]

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S18 family of mitochondrial ribosomal proteins: evolutionary history and Gly132 polymorphism in colon carcinoma.

Mushtaq M, Ali RH, Kashuba V, Klein G, Kashuba E

Oncotarget 7 (34) 55649-55662 [2016-08-23; online 2016-08-05]

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Ras and TGF-β signaling enhance cancer progression by promoting the ΔNp63 transcriptional program.

Vasilaki E, Morikawa M, Koinuma D, ..., Miyazono K, Heldin CH

Sci Signal 9 (442) ra84 [2016-08-23; online 2016-08-23]

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Oxidation and cyclization of casbene in the biosynthesis of Euphorbia factors from mature seeds of Euphorbia lathyris L.

Luo D, Callari R, Hamberger B, ..., Staerk D, Hamberger B

Proc. Natl. Acad. Sci. U.S.A. 113 (34) E5082-E5089 [2016-08-23; online 2016-08-09]

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Single base resolution analysis of 5-hydroxymethylcytosine in 188 human genes: implications for hepatic gene expression.

Ivanov M, Kals M, Lauschke V, ..., Milani L, Ingelman-Sundberg M

Nucleic Acids Res. 44 (14) 6756-6769 [2016-08-19; online 2016-04-29]

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Multifunctional Hyaluronic Acid and Chondroitin Sulfate Nanoparticles: Impact of Glycosaminoglycan Presentation on Receptor Mediated Cellular Uptake and Immune Activation.

Oommen OP, Duehrkop C, Nilsson B, Hilborn J, Varghese OP

ACS Appl Mater Interfaces 8 (32) 20614-20624 [2016-08-17; online 2016-08-05]

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Label-free detection of real-time DNA amplification using a nanofluidic diffraction grating.

Yasui T, Ogawa K, Kaji N, ..., Horiike Y, Baba Y

Sci Rep 6 (-) 31642 [2016-08-17; online 2016-08-17]

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Multiplex PCB-based electrochemical detection of cancer biomarkers using MLPA-barcode approach.

Sánchez JL, Henry OY, Joda H, ..., Riley I, O'Sullivan CK

Biosens Bioelectron 82 (-) 224-232 [2016-08-15; online 2016-04-07]

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Metastasis Stimulation by Hypoxia and Acidosis-Induced Extracellular Lipid Uptake Is Mediated by Proteoglycan-Dependent Endocytosis.

Menard JA, Christianson HC, Kucharzewska P, ..., Johansson MC, Belting M

Cancer Res. 76 (16) 4828-4840 [2016-08-15; online 2016-05-19]

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A Deeper Look into Type 1 Diabetes - Imaging Immune Responses during Onset of Disease.

Christoffersson G, von Herrath MG

Front Immunol 7 (-) 313 [2016-08-15; online 2016-08-15]

Gustaf Christoffersson SciLifeLab Fellow

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The diagnosis of pre-eclampsia using two revised classifications in the Finnish Pre-eclampsia Consortium (FINNPEC) cohort.

Kallela J, Jääskeläinen T, Kortelainen E, ..., Pouta A, Laivuori H

BMC Pregnancy Childbirth 16 (-) 221 [2016-08-12; online 2016-08-12]

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Mixed cultures as model communities: hunting for ubiquitous microorganisms, their partners, and interactions

Garcia S

Aquat. Microb. Ecol. 77 (2) 79-85 [2016-08-12; online 2016-08-12]

Sarahi Garcia SciLifeLab Fellow

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Stratification of responders towards eculizumab using a structural epitope mapping strategy.

Volk AL, Hu FJ, Berglund MM, ..., Uhlen M, Rockberg J

Sci Rep 6 (-) 31365 [2016-08-11; online 2016-08-11]

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Global profiling of SRP interaction with nascent polypeptides.

Schibich D, Gloge F, Pöhner I, ..., Bukau B, Kramer G

Nature 536 (7615) 219-223 [2016-08-11; online 2016-08-03]

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Enzyme overexpression - an exercise toward understanding regulation of heparan sulfate biosynthesis.

Fang J, Song T, Lindahl U, Li JP

Sci Rep 6 (-) 31242 [2016-08-11; online 2016-08-11]

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Large-scale ligand-based predictive modelling using support vector machines.

Alvarsson J, Lampa S, Schaal W, ..., Wikberg JE, Spjuth O

J Cheminform 8 (-) 39 [2016-08-10; online 2016-08-10]

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IFN-γ Hinders Recovery from Mucosal Inflammation during Antibiotic Therapy for Salmonella Gut Infection.

Dolowschiak T, Mueller AA, Pisan LJ, ..., Mueller C, Hardt WD

Cell Host Microbe 20 (2) 238-249 [2016-08-10; online 2016-07-21]

Mikael Sellin SciLifeLab Fellow

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Role of Conserved Gly-Gly Pairs on the Periplasmic Side of LacY.

Jiang X, Andersson M, Chau BT, ..., Villafuerte MK, Kaback HR

Biochemistry 55 (31) 4326-4332 [2016-08-09; online 2016-08-01]

Affiliated researcher

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Production of hemolysin BL by Bacillus cereus group isolates of dairy origin is associated with whole-genome phylogenetic clade.

Kovac J, Miller RA, Carroll LM, ..., Beno SM, Wiedmann M

BMC Genomics 17 (-) 581 [2016-08-09; online 2016-08-09]

DDLS Fellow Laura Carroll

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A genome-wide screening uncovers the role of CCAR2 as an antagonist of DNA end resection.

López-Saavedra A, Gómez-Cabello D, Domínguez-Sánchez MS, ..., Bartek J, Huertas P

Nat Commun 7 (-) 12364 [2016-08-09; online 2016-08-09]

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Stromal Hedgehog signalling is downregulated in colon cancer and its restoration restrains tumour growth.

Gerling M, Büller NV, Kirn LM, ..., van den Brink GR, Toftgård R

Nat Commun 7 (-) 12321 [2016-08-05; online 2016-08-05]

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Photoswitchable Spiropyran Dyads for Biological Imaging.

Xiong Y, Rivera-Fuentes P, Sezgin E, ..., Eggeling C, Anderson HL

Org. Lett. 18 (15) 3666-3669 [2016-08-05; online 2016-07-26]

Erdinc Sezgin SciLifeLab Fellow

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Integration of a Droplet-Based Microfluidic System and Silicon Nanoribbon FET Sensor.

Afrasiabi R, Soderberg LM, Joensson HN, ..., Andersson Svahn H, Linnros J

Micromachines (Basel) 7 (8) - [2016-08-05; online 2016-08-05]

Affiliated researcher

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The genetic architecture of type 2 diabetes.

Fuchsberger C, Flannick J, Teslovich TM, ..., Altshuler D, McCarthy MI

Nature 536 (7614) 41-47 [2016-08-04; online 2016-07-11]

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Molecular Dynamics Simulation Study of Parallel Telomeric DNA Quadruplexes at Different Ionic Strengths: Evaluation of Water and Ion Models.

Rebič M, Laaksonen A, Šponer J, Uličný J, Mocci F

J Phys Chem B 120 (30) 7380-7391 [2016-08-04; online 2016-07-26]

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The chaperone co-inducer BGP-15 alleviates ventilation-induced diaphragm dysfunction.

Salah H, Li M, Cacciani N, ..., Salviati L, Larsson L

Sci Transl Med 8 (350) 350ra103 [2016-08-03; online 2016-08-05]

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B Cell Receptor Activation Predominantly Regulates AKT-mTORC1/2 Substrates Functionally Related to RNA Processing.

Mohammad DK, Ali RH, Turunen JJ, Nore BF, Smith CI

PLoS ONE 11 (8) e0160255 [2016-08-03; online 2016-08-03]

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Compounds from the marine sponge Cribrochalina vasculum offer a way to target IGF-1R mediated signaling in tumor cells.

Zovko A, Novak M, Hååg P, ..., Lewensohn R, Viktorsson K

Oncotarget 7 (31) 50258-50276 [2016-08-02; online 2016-07-08]

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Tumor-Induced NETosis as a Risk Factor for Metastasis and Organ Failure.

Cedervall J, Zhang Y, Olsson AK

Cancer Res. 76 (15) 4311-4315 [2016-08-01; online 2016-07-11]

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TreeDom: a graphical web tool for analysing domain architecture evolution.

Haider C, Kavic M, Sonnhammer EL

Bioinformatics 32 (15) 2384-2385 [2016-08-01; online 2016-03-12]

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Targeting Suppressive Myeloid Cells Potentiates Checkpoint Inhibitors to Control Spontaneous Neuroblastoma.

Mao Y, Eissler N, Blanc KL, ..., Kogner P, Kiessling R

Clin. Cancer Res. 22 (15) 3849-3859 [2016-08-01; online 2016-03-08]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

Simulated single molecule microscopy with SMeagol.

Lindén M, Ćurić V, Boucharin A, Fange D, Elf J

Bioinformatics 32 (15) 2394-2395 [2016-08-01; online 2016-03-04]

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Signaling Receptors for TGF-β Family Members.

Heldin CH, Moustakas A

Cold Spring Harbor Perspectives in Biology 8 (8) - [2016-08-01; online 2016-08-01]

Affiliated researcher

PubMed DOI Crossref

Profilin connects actin assembly with microtubule dynamics.

Nejedla M, Sadi S, Sulimenko V, ..., Aspenström P, Karlsson R

Mol. Biol. Cell 27 (15) 2381-2393 [2016-08-01; online 2016-06-15]

Affiliated researcher

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On the reversibility of parasitism: adaptation to a free-living lifestyle via gene acquisitions in the diplomonad Trepomonas sp. PC1.

Xu F, Jerlström-Hultqvist J, Kolisko M, ..., Svärd SG, Andersson JO

BMC Biol. 14 (-) 62 [2016-08-01; online 2016-08-01]

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Adaptation to different types of stress converge on mitochondrial metabolism.

Lahtvee PJ, Kumar R, Hallström BM, Nielsen J

Mol. Biol. Cell 27 (15) 2505-2514 [2016-08-01; online 2016-06-15]

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Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria.

Eiler A, Mondav R, Sinclair L, ..., Woyke T, Bertilsson S

ISME J 10 (8) 1902-1914 [2016-08-00; online 2016-01-19]

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Transcriptomic analysis reveals how a lack of potassium ions increases Sulfolobus acidocaldarius sensitivity to pH changes.

Buetti-Dinh A, Dethlefsen O, Friedman R, Dopson M

Microbiology (Reading, Engl.) 162 (8) 1422-1434 [2016-08-00; online 2016-05-26]

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Skeletal response to diet with soya bean seeds used as primary source of protein in growing broiler chickens.

Olkowski B, Charuta A, Radzki R, Bieńko M, Toczko R

Journal of animal physiology and animal nutrition 100 (4) 731-737 [2016-08-00; online 2016-02-08]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Single-cell 5hmC sequencing reveals chromosome-wide cell-to-cell variability and enables lineage reconstruction.

Mooijman D, Dey SS, Boisset JC, Crosetto N, van Oudenaarden A

Nat. Biotechnol. 34 (8) 852-856 [2016-08-00; online 2016-06-27]

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SATB2 is expressed in Merkel cell carcinoma.

Fukuhara M, Agnarsdóttir M, Edqvist PH, Coter A, Ponten F

Arch. Dermatol. Res. 308 (6) 449-454 [2016-08-00; online 2016-06-04]

Affiliated researcher

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Rapid Evolution of Genomic Imprinting in Two Species of the Brassicaceae.

Hatorangan MR, Laenen B, Steige KA, Slotte T, Köhler C

Plant Cell 28 (8) 1815-1827 [2016-08-00; online 2016-07-27]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Quantification of β-Cell Mass in Intramuscular Islet Grafts Using Radiolabeled Exendin-4.

Espes D, Selvaraju R, Velikyan I, ..., Carlsson PO, Eriksson O

Transplantation direct 2 (8) e93 [2016-08-00; online 2016-07-22]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Probing amyloid-β pathology in transgenic Alzheimer's disease (tgArcSwe) mice using MALDI imaging mass spectrometry.

Carlred L, Michno W, Kaya I, ..., Syvänen S, Hanrieder J

J. Neurochem. 138 (3) 469-478 [2016-08-00; online 2016-05-26]

SciLifeLab Fellow Wojciech Michno

PubMed DOI Crossref

Pathways controlling dNTP pools to maintain genome stability.

Rudd SG, Valerie NCK, Helleday T

DNA Repair (Amst.) 44 (-) 193-204 [2016-08-00; online 2016-05-28]

Affiliated researcher

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Otopalatodigital spectrum disorders: refinement of the phenotypic and mutational spectrum.

Moutton S, Fergelot P, Naudion S, ..., Goizet C, Coupry I

J. Hum. Genet. 61 (8) 693-699 [2016-08-00; online 2016-05-19]

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Novel regulatory variant detected on the VKORC1 haplotype that is associated with warfarin dose.

Cavalli M, Pan G, Nord H, ..., Wadelius C, Wadelius M

Pharmacogenomics 17 (12) 1305-1314 [2016-08-00; online 2016-02-05]

Affiliated researcher

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Neuroprotective potential of Linezolid: a quantitative and distribution study via mass spectrometry.

Baijnath S, Shobo A, Bester LA, ..., Naicker T, Govender T

J. Mol. Histol. 47 (4) 429-435 [2016-08-00; online 2016-06-21]

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NF-κB activation in chronic lymphocytic leukemia: A point of convergence of external triggers and intrinsic lesions.

Mansouri L, Papakonstantinou N, Ntoufa S, Stamatopoulos K, Rosenquist R

Semin. Cancer Biol. 39 (-) 40-48 [2016-08-00; online 2016-08-01]

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Liver: Phenotypic and genetic variance: a systems approach to the liver.

Mardinoglu A, Uhlén M

Nat Rev Gastroenterol Hepatol 13 (8) 439-440 [2016-08-00; online 2016-06-22]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Initial hyperinsulinemia and subsequent β-cell dysfunction is associated with elevated palmitate levels.

Staaf J, Ubhayasekera SJ, Sargsyan E, ..., Forslund A, Bergsten P

Pediatr. Res. 80 (2) 267-274 [2016-08-00; online 2016-04-11]

Affiliated researcher

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Impact of ocean acidification on antimicrobial activity in gills of the blue mussel (Mytilus edulis).

Hernroth B, Baden S, Tassidis H, ..., Bergström Lind S, Bergquist J

Fish Shellfish Immunol. 55 (-) 452-459 [2016-08-00; online 2016-06-08]

Affiliated researcher

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Genome-wide association meta-analysis in Chinese and European individuals identifies ten new loci associated with systemic lupus erythematosus.

Morris DL, Sheng Y, Zhang Y, ..., Cui Y, Vyse TJ

Nat. Genet. 48 (8) 940-946 [2016-08-00; online 2016-07-11]

Affiliated researcher

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Genetic determinants of warfarin maintenance dose and time in therapeutic treatment range: a RE-LY genomics substudy.

Eriksson N, Wallentin L, Berglund L, ..., Yusuf S, Wadelius M

Pharmacogenomics 17 (13) 1425-1439 [2016-08-00; online 2016-08-04]

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Evidence for genetic regulation of the human parieto-occipital 10-Hz rhythmic activity.

Salmela E, Renvall H, Kujala J, ..., Salmelin R, Kere J

Eur. J. Neurosci. 44 (3) 1963-1971 [2016-08-00; online 2016-07-04]

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Different spectra of recurrent gene mutations in subsets of chronic lymphocytic leukemia harboring stereotyped B-cell receptors.

Sutton LA, Young E, Baliakas P, ..., Rosenquist R, ERIC, the European Research Initiative on CLL

Haematologica 101 (8) 959-967 [2016-08-00; online 2016-05-19]

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Different Alleles of a Gene Encoding Leucoanthocyanidin Reductase (PaLAR3) Influence Resistance against the Fungus Heterobasidion parviporum in Picea abies.

Nemesio-Gorriz M, Hammerbacher A, Ihrmark K, ..., Gershenzon J, Elfstrand M

Plant Physiol. 171 (4) 2671-2681 [2016-08-00; online 2016-06-17]

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Coordinated disassembly of the divisome complex in Escherichia coli.

Söderström B, Mirzadeh K, Toddo S, ..., Skoglund U, Daley DO

Mol. Microbiol. 101 (3) 425-438 [2016-08-00; online 2016-05-23]

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Acoustic micro-vortexing of fluids, particles and cells in disposable microfluidic chips.

Iranmanesh I, Ohlin M, Ramachandraiah H, ..., Russom A, Wiklund M

Biomed Microdevices 18 (4) 71 [2016-08-00; online 2016-07-23]

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A novel splicing mutation in the IQSEC2 gene that modulates the phenotype severity in a family with intellectual disability.

Madrigal I, Alvarez-Mora MI, Rosell J, ..., Syvänen AC, Mila M

Eur. J. Hum. Genet. 24 (8) 1117-1123 [2016-08-00; online 2016-01-06]

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A Longitudinal Follow-up of Autoimmune Polyendocrine Syndrome Type 1.

Bruserud Ø, Oftedal BE, Landegren N, ..., Wolff AB, Husebye ES

J. Clin. Endocrinol. Metab. 101 (8) 2975-2983 [2016-08-00; online 2016-06-02]

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Identification of combinatorial host-specific signatures with a potential to affect host adaptation in influenza A H1N1 and H3N2 subtypes.

Khaliq Z, Leijon M, Belák S, Komorowski J

BMC Genomics 17 (-) 529 [2016-07-29; online 2016-07-29]

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The Synchronization of Replication and Division Cycles in Individual E. coli Cells.

Wallden M, Fange D, Lundius EG, Baltekin Ö, Elf J

Cell 166 (3) 729-739 [2016-07-28; online 2016-07-30]

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Inhibitors of the Cysteine Synthase CysM with Antibacterial Potency against Dormant Mycobacterium tuberculosis.

Brunner K, Maric S, Reshma RS, ..., Schnell R, Schneider G

J. Med. Chem. 59 (14) 6848-6859 [2016-07-28; online 2016-07-13]

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Identification of Novel Transcribed Regions in Zebrafish (Danio rerio) Using RNA-Sequencing.

Wang J, Vesterlund L, Kere J, Jiao H

PLoS ONE 11 (7) e0160197 [2016-07-27; online 2016-07-27]

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Human cytomegalovirus may promote tumour progression by upregulating arginase-2.

Costa H, Xu X, Overbeek G, ..., Söderberg-Naucler C, Yaiw KC

Oncotarget 7 (30) 47221-47231 [2016-07-26; online 2016-07-01]

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ABCG2 regulates self-renewal and stem cell marker expression but not tumorigenicity or radiation resistance of glioma cells.

Wee B, Pietras A, Ozawa T, ..., Michor F, Holland EC

Sci Rep 6 (-) 25956 [2016-07-26; online 2016-07-26]

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Computer-Aided Production of Scaffolded DNA Nanostructures from Flat Sheet Meshes.

Benson E, Mohammed A, Bosco A, ..., Orponen P, Högberg B

Angew. Chem. Int. Ed. Engl. 55 (31) 8869-8872 [2016-07-25; online 2016-06-15]

Erik Benson SciLifeLab Fellow

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Computational studies of human class V alcohol dehydrogenase - the odd sibling.

Östberg LJ, Persson B, Höög JO

BMC Biochem. 17 (1) 16 [2016-07-25; online 2016-07-25]

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PubMed

The importance of the type I interferon system in autoimmunity.

Rönnblom L

Clin. Exp. Rheumatol. 34 (4 Suppl 98) 21-24 [2016-07-21; online 2016-07-21]

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Preclinical Evaluation of AdVince, an Oncolytic Adenovirus Adapted for Treatment of Liver Metastases from Neuroendocrine Cancer.

Yu D, Leja-Jarblad J, Loskog A, ..., Oberg K, Essand M

Neuroendocrinology 105 (1) 54-66 [2016-07-21; online 2016-07-21]

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Chemical regulators of epithelial plasticity reveal a nuclear receptor pathway controlling myofibroblast differentiation.

Carthy JM, Stöter M, Bellomo C, ..., Heldin CH, Moustakas A

Sci Rep 6 (-) 29868 [2016-07-19; online 2016-07-19]

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Identification of meat products by shotgun spectral matching.

Ohana D, Dalebout H, Marissen RJ, ..., Deelder AM, Palmblad M

Food Chem 203 (-) 28-34 [2016-07-15; online 2016-02-02]

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Cloche is a bHLH-PAS transcription factor that drives haemato-vascular specification.

Reischauer S, Stone OA, Villasenor A, ..., Andersson O, Stainier DY

Nature 535 (7611) 294-298 [2016-07-14; online 2016-07-15]

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Human serum-derived protein removes the need for coating in defined human pluripotent stem cell culture.

Pijuan-Galitó S, Tamm C, Schuster J, ..., Merry CL, Annerén C

Nat Commun 7 (-) 12170 [2016-07-13; online 2016-07-13]

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Electron transition pathways of photoluminescence from 3C-SiC nanocrystals unraveled by steady-state, blinking and time-resolved photoluminescence measurements

Gan Z, Wu X, Xu H, ..., Nie S, Fu Y

J. Phys. D: Appl. Phys. 49 (27) 275107 [2016-07-13; online 2016-06-14]

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Avidity characterization of genetically engineered T-cells with novel and established approaches.

Hillerdal V, Boura VF, Björkelund H, Andersson K, Essand M

BMC Immunol. 17 (1) 23 [2016-07-13; online 2016-07-13]

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Mendelian randomisation analysis strongly implicates adiposity with risk of developing colorectal cancer.

Jarvis D, Mitchell JS, Law PJ, ..., Tomlinson IP, Houlston RS

Br. J. Cancer 115 (2) 266-272 [2016-07-12; online 2016-06-23]

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Integrated Network Analysis Reveals an Association between Plasma Mannose Levels and Insulin Resistance.

Lee S, Zhang C, Kilicarslan M, ..., Boren J, Mardinoglu A

Cell Metab. 24 (1) 172-184 [2016-07-12; online 2016-06-23]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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5-Hydroxymethylcytosine Remodeling Precedes Lineage Specification during Differentiation of Human CD4(+) T Cells.

Nestor CE, Lentini A, Hägg Nilsson C, ..., Zhang H, Benson M

Cell Reports 16 (2) 559-570 [2016-07-12; online 2016-06-23]

Antonio Lentini DDLS Fellow

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PathwAX: a web server for network crosstalk based pathway annotation.

Ogris C, Helleday T, Sonnhammer EL

Nucleic Acids Res. 44 (W1) W105-W109 [2016-07-08; online 2016-05-05]

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Local Adaptation in European Firs Assessed through Extensive Sampling across Altitudinal Gradients in Southern Europe.

Brousseau L, Postolache D, Lascoux M, ..., Fady B, Vendramin GG

PLoS ONE 11 (7) e0158216 [2016-07-08; online 2016-07-08]

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Dysregulated signaling hubs of liver lipid metabolism reveal hepatocellular carcinoma pathogenesis.

Lee S, Mardinoglu A, Zhang C, Lee D, Nielsen J

Nucleic Acids Res. 44 (12) 5529-5539 [2016-07-08; online 2016-05-23]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Large Deletions at the SHOX Locus in the Pseudoautosomal Region Are Associated with Skeletal Atavism in Shetland Ponies.

Rafati N, Andersson LS, Mikko S, ..., Lindgren G, Rubin CJ

G3 6 (7) 2213-2223 [2016-07-07; online 2016-07-07]

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Identifying Genetic Signatures of Natural Selection Using Pooled Population Sequencing in Picea abies.

Chen J, Källman T, Ma XF, ..., Morgante M, Lascoux M

G3 6 (7) 1979-1989 [2016-07-07; online 2016-07-07]

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Exome sequencing in pooled DNA samples to identify maternal pre-eclampsia risk variants.

Kaartokallio T, Wang J, Heinonen S, ..., Kere J, Laivuori H

Sci Rep 6 (-) 29085 [2016-07-07; online 2016-07-07]

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Survival-associated heterogeneity of marker-defined perivascular cells in colorectal cancer.

Mezheyeuski A, Bradic Lindh M, Guren TK, ..., Sorbye H, Östman A

Oncotarget 7 (27) 41948-41958 [2016-07-05; online 2016-06-02]

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Pooled analysis of genome-wide association studies of cervical intraepithelial neoplasia 3 (CIN3) identifies a new susceptibility locus.

Chen D, Enroth S, Liu H, ..., Xu S, Gyllensten U

Oncotarget 7 (27) 42216-42224 [2016-07-05; online 2016-06-11]

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Estrogen receptor beta reduces colon cancer metastasis through a novel miR-205 - PROX1 mechanism.

Nguyen-Vu T, Wang J, Mesmar F, ..., Bondesson M, Williams C

Oncotarget 7 (27) 42159-42171 [2016-07-05; online 2016-06-11]

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Systematic drug screening reveals specific vulnerabilities and co-resistance patterns in endocrine-resistant breast cancer.

Kangaspeska S, Hultsch S, Jaiswal A, ..., Aittokallio T, Kallioniemi O

BMC Cancer 16 (-) 378 [2016-07-04; online 2016-07-04]

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Molecular Evolutionary Consequences of Island Colonization.

James JE, Lanfear R, Eyre-Walker A

Genome Biol Evol 8 (6) 1876-1888 [2016-07-02; online 2016-07-02]

Jennifer James

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Visualization and analysis of gene expression in tissue sections by spatial transcriptomics.

Ståhl PL, Salmén F, Vickovic S, ..., Lundeberg J, Frisén J

Science (New York, N.Y.) 353 (6294) 78-82 [2016-07-01; online 2016-07-02]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

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Sunitinib enhances the antitumor responses of agonistic CD40-antibody by reducing MDSCs and synergistically improving endothelial activation and T-cell recruitment.

van Hooren L, Georganaki M, Huang H, Mangsbo SM, Dimberg A

Oncotarget 7 (31) 50277-50289 [2016-07-01; online 2016-07-08]

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PON-Sol: prediction of effects of amino acid substitutions on protein solubility.

Yang Y, Niroula A, Shen B, Vihinen M

Bioinformatics 32 (13) 2032-2034 [2016-07-01; online 2016-02-19]

Abhishek Niroula DDLS Fellow

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Hyaluronic acid-fibrin interpenetrating double network hydrogel prepared in situ by orthogonal disulfide cross-linking reaction for biomedical applications.

Zhang Y, Heher P, Hilborn J, Redl H, Ossipov DA

Acta Biomater 38 (-) 23-32 [2016-07-01; online 2016-04-28]

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Assembly scaffolding with PE-contaminated mate-pair libraries.

Sahlin K, Chikhi R, Arvestad L

Bioinformatics 32 (13) 1925-1932 [2016-07-01; online 2016-03-02]

Affiliated researcher Kristoffer Sahlin SciLifeLab Fellow

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The role of germline alterations in the DNA damage response genes BRIP1 and BRCA2 in melanoma susceptibility.

Tuominen R, Engström PG, Helgadottir H, ..., Hansson J, Höiom V

Genes Chromosomes Cancer 55 (7) 601-611 [2016-07-00; online 2016-05-02]

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Tandem mass spectrometry determined maternal cortisone to cortisol ratio and psychiatric morbidity during pregnancy-interaction with birth weight.

Hellgren C, Edvinsson Å, Olivier JD, ..., Bergquist J, Sundström-Poromaa I

Psychoneuroendocrinology 69 (-) 142-149 [2016-07-00; online 2016-04-07]

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Super-resolution structured illumination fluorescence microscopy of the lateral wall of the cochlea: the Connexin26/30 proteins are separately expressed in man.

Liu W, Edin F, Blom H, ..., Laurell G, Rask-Andersen H

Cell Tissue Res. 365 (1) 13-27 [2016-07-00; online 2016-03-04]

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Safe engineering of CAR T cells for adoptive cell therapy of cancer using long-term episomal gene transfer.

Jin C, Fotaki G, Ramachandran M, ..., Essand M, Yu D

EMBO Mol Med 8 (7) 702-711 [2016-07-00; online 2016-07-01]

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Regulation of the TGF-β pathway by deubiquitinases in cancer.

Liu S, de Boeck M, van Dam H, Ten Dijke P

Int. J. Biochem. Cell Biol. 76 (-) 135-145 [2016-07-00; online 2016-05-04]

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Prevention of apoptosis averts glomerular tubular disconnection and podocyte loss in proteinuric kidney disease.

Burlaka I, Nilsson LM, Scott L, ..., Brismar H, Aperia A

Kidney Int. 90 (1) 135-148 [2016-07-00; online 2016-05-21]

Affiliated researcher

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Physical and verbal aggressive behavior and COMT genotype: Sensitivity to the environment.

Tuvblad C, Narusyte J, Comasco E, ..., Fanti KA, Nilsson KW

Am. J. Med. Genet. B Neuropsychiatr. Genet. 171 (5) 708-718 [2016-07-00; online 2016-02-17]

Erika Comasco SciLifeLab Fellow

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PDMS-Based Elastomer Tuned Soft, Stretchable, and Sticky for Epidermal Electronics.

Jeong SH, Zhang S, Hjort K, Hilborn J, Wu Z

Adv. Mater. Weinheim 28 (28) 5830-5836 [2016-07-00; online 2016-05-11]

Affiliated researcher

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Morphological stability of microencapsulated vitamin formulations by AFM imaging

Mougin K, Bruntz A, Severin D, Teleki A

Food Structure 9 (-) 1-12 [2016-07-00; online 2016-07-00]

Alexandra Teleki SciLifeLab Fellow

DOI Crossref

Measurement‐based wireless network planning, monitoring, and reconfiguration solution for robust radio communications in indoor factories

Gong X, Trogh J, Braet Q, ..., Martens L, Joseph W

IET Science, Measurement & Technology 10 (4) 375-382 [2016-07-00; online 2016-07-00]

Prashant Singh SciLifeLab Fellow

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Klinefelter's syndrome (47,XXY) is in excess among men with Sjögren's syndrome.

Harris VM, Sharma R, Cavett J, ..., Sivils KL, Scofield RH

Clin. Immunol. 168 (-) 25-29 [2016-07-00; online 2016-04-22]

Affiliated researcher

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In vivo imaging of beta cells with radiotracers: state of the art, prospects and recommendations for development and use.

Eriksson O, Laughlin M, Brom M, ..., Bonadonna R, Gotthardt M

Diabetologia 59 (7) 1340-1349 [2016-07-00; online 2016-04-19]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations.

Bendall ML, Stevens SL, Chan LK, ..., McMahon KD, Malmstrom RR

ISME J 10 (7) 1589-1601 [2016-07-00; online 2016-01-08]

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Functional characterization of neurotransmitter activation and modulation in a nematode model ligand-gated ion channel.

Heusser SA, Yoluk Ö, Klement G, ..., Lindahl E, Howard RJ

J. Neurochem. 138 (2) 243-253 [2016-07-00; online 2016-05-25]

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PubMed DOI Crossref

Distinct transcription factor complexes act on a permissive chromatin landscape to establish regionalized gene expression in CNS stem cells.

Hagey DW, Zaouter C, Combeau G, ..., Huss M, Muhr J

Genome Res. 26 (7) 908-917 [2016-07-00; online 2016-05-02]

Affiliated researcher

PubMed DOI Crossref

Corticotropin-releasing hormone family evolution: five ancestral genes remain in some lineages.

Cardoso JC, Bergqvist CA, Félix RC, Larhammar D

J. Mol. Endocrinol. 57 (1) 73-86 [2016-07-00; online 2016-05-24]

Affiliated researcher

PubMed DOI Crossref

Corticolimbic anatomical characteristics predetermine risk for chronic pain.

Vachon-Presseau E, Tétreault P, Petre B, ..., Baliki MN, Apkarian AV

Brain 139 (Pt 7) 1958-1970 [2016-07-00; online 2016-05-05]

Affiliated researcher Erika Comasco SciLifeLab Fellow

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Constraints on methane oxidation in ice-covered boreal lakes

Denfeld BA, Ricão Canelhas M, Weyhenmeyer GA, ..., Eiler A, Bastviken D

J. Geophys. Res. Biogeosci. 121 (7) 1924-1933 [2016-07-00; online 2016-07-22]

Affiliated researcher

PubMed DOI Crossref

Combined structural, biochemical and cellular evidence demonstrates that both FGDF motifs in alphavirus nsP3 are required for efficient replication.

Schulte T, Liu L, Panas MD, ..., Achour A, McInerney GM

Open Biol 6 (7) - [2016-07-00; online 2016-07-08]

Affiliated researcher

PubMed DOI Crossref

Chronic p53-independent p21 expression causes genomic instability by deregulating replication licensing.

Galanos P, Vougas K, Walter D, ..., Bartek J, Gorgoulis VG

Nat. Cell Biol. 18 (7) 777-789 [2016-07-00; online 2016-06-20]

Affiliated researcher

PubMed DOI Crossref

Chronic kidney disease and 10-year risk of cardiovascular death.

Holzmann MJ, Carlsson AC, Hammar N, ..., Wändell P, Ärnlöv J

Eur J Prev Cardiol 23 (11) 1187-1194 [2016-07-00; online 2015-11-05]

Affiliated researcher

PubMed DOI Crossref

Cardiovascular side-effects and insulin secretion after intravenous administration of radiolabeled Exendin-4 in pigs.

Rydén A, Nyman G, Nalin L, ..., Eriksson O, Jensen-Waern M

Nucl. Med. Biol. 43 (7) 397-402 [2016-07-00; online 2016-04-16]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Application of a Nonlinear Model to Transcript Levels of Upregulated Stress Response Gene ibpA in Stationary-Phase Salmonella enterica Subjected to Sublethal Heat Stress.

Carroll LM, Bergholz TM, Hildebrandt IM, Marks BP

J Food Prot 79 (7) 1089-1096 [2016-07-00; online 2016-07-01]

DDLS Fellow Laura Carroll

PubMed DOI Crossref

Antagonists of IGF:Vitronectin Interactions Inhibit IGF-I-Induced Breast Cancer Cell Functions.

Kashyap AS, Shooter GK, Shokoohmand A, ..., Upton Z, Hollier BG

Mol. Cancer Ther. 15 (7) 1602-1613 [2016-07-00; online 2016-05-09]

Affiliated researcher

PubMed DOI Crossref

A draft fur seal genome provides insights into factors affecting SNP validation and how to mitigate them.

Humble E, Martinez-Barrio A, Forcada J, ..., Wolf JB, Hoffman JI

Mol Ecol Resour 16 (4) 909-921 [2016-07-00; online 2016-01-20]

Affiliated researcher

PubMed DOI Crossref

UtpA and UtpB chaperone nascent pre-ribosomal RNA and U3 snoRNA to initiate eukaryotic ribosome assembly.

Hunziker M, Barandun J, Petfalski E, ..., Tollervey D, Klinge S

Nat Commun 7 (-) 12090 [2016-06-29; online 2016-06-29]

Jonas Barandun SciLifeLab Fellow

PubMed DOI Crossref

Multiple regulatory variants located in cell type-specific enhancers within the PKP2 locus form major risk and protective haplotypes for canine atopic dermatitis in German shepherd dogs.

Tengvall K, Kozyrev S, Kierczak M, ..., Andersson G, Lindblad-Toh K

BMC Genet. 17 (1) 97 [2016-06-29; online 2016-06-29]

Affiliated researcher

PubMed DOI Crossref

Heparanase expression upregulates platelet adhesion activity and thrombogenicity.

Cui H, Tan YX, Österholm C, ..., Vlodavsky I, Li JP

Oncotarget 7 (26) 39486-39496 [2016-06-28; online 2016-10-26]

Affiliated researcher

PubMed DOI Crossref

Conformational diversity and enantioconvergence in potato epoxide hydrolase 1.

Bauer P, Carlsson ÅJ, Amrein BA, ..., Widersten M, Kamerlin SC

Org. Biomol. Chem. 14 (24) 5639-5651 [2016-06-28; online 2016-04-06]

Affiliated researcher

PubMed DOI Crossref

Cryptosporidium as a testbed for single cell genome characterization of unicellular eukaryotes.

Troell K, Hallström B, Divne AM, ..., Beser J, Bertilsson S

BMC Genomics 17 (-) 471 [2016-06-23; online 2016-06-23]

Affiliated researcher

PubMed DOI Crossref

Genetic heterogeneity in primary and relapsed mantle cell lymphomas: Impact of recurrent CARD11 mutations.

Wu C, de Miranda NF, Chen L, ..., Sander B, Pan-Hammarström Q

Oncotarget 7 (25) 38180-38190 [2016-06-21; online 2016-10-23]

Affiliated researcher

PubMed DOI Crossref

iGEMS: an integrated model for identification of alternative exon usage events.

Sood S, Szkop KJ, Nakhuda A, ..., Larsson O, Timmons JA

Nucleic Acids Res. 44 (11) e109 [2016-06-20; online 2016-04-19]

Affiliated researcher

PubMed DOI Crossref

Identification of Cancer Related Genes Using a Comprehensive Map of Human Gene Expression.

Torrente A, Lukk M, Xue V, ..., Rung J, Brazma A

PLoS ONE 11 (6) e0157484 [2016-06-20; online 2016-06-20]

Affiliated researcher

DOI Crossref

Mechanism-Guided Discovery of an Esterase Scaffold with Promiscuous Amidase Activity

Kürten C, Carlberg B, Syrén PO

Catalysts 6 (6) 90 [2016-06-18; online 2016-06-18]

Affiliated researcher

PubMed DOI Crossref

Overexpression of the scaffold WD40 protein WRAP53β enhances the repair of and cell survival from DNA double-strand breaks.

Rassoolzadeh H, Böhm S, Hedström E, ..., Henriksson S, Farnebo M

Cell Death Dis 7 (-) e2267 [2016-06-16; online 2016-06-16]

Affiliated researcher

PubMed DOI Crossref

Effects of Fluoxetine on Human Embryo Development.

Kaihola H, Yaldir FG, Hreinsson J, ..., Åkerud H, Sundström-Poromaa I

Front. Cell. Neurosci. 10 (-) 160 [2016-06-16; online 2016-06-16]

Affiliated researcher

PubMed DOI Crossref

Read-based phasing of related individuals.

Garg S, Martin M, Marschall T

Bioinformatics 32 (12) i234-i242 [2016-06-15; online 2016-06-17]

Affiliated researcher

PubMed DOI Crossref

Protein Z: A putative novel biomarker for early detection of ovarian cancer.

Russell MR, Walker MJ, Williamson AJ, ..., Jacobs I, Graham RL

Int. J. Cancer 138 (12) 2984-2992 [2016-06-15; online 2016-02-19]

Affiliated researcher

PubMed DOI Crossref

Tumor acidosis enhances cytotoxic effects and autophagy inhibition by salinomycin on cancer cell lines and cancer stem cells.

Pellegrini P, Dyczynski M, Sbrana FV, ..., Kharaziha P, De Milito A

Oncotarget 7 (24) 35703-35723 [2016-06-14; online 2016-06-02]

Affiliated researcher

PubMed DOI Crossref

The histone methyltransferase EZH2 as a novel prosurvival factor in clinically aggressive chronic lymphocytic leukemia.

Papakonstantinou N, Ntoufa S, Chartomatsidou E, ..., Rosenquist R, Stamatopoulos K

Oncotarget 7 (24) 35946-35959 [2016-06-14; online 2016-05-19]

Affiliated researcher

PubMed DOI Crossref

Evolution and expression of the phosphodiesterase 6 genes unveils vertebrate novelty to control photosensitivity.

Lagman D, Franzén IE, Eggert J, Larhammar D, Abalo XM

BMC Evol Biol BMC Evolutionary Biology 16 (1) 124 [2016-06-13; online 2016-06-13]

Affiliated researcher

PubMed DOI Crossref

Regulation of Bone Morphogenetic Protein Signaling by ADP-ribosylation.

Watanabe Y, Papoutsoglou P, Maturi V, ..., Heldin CH, Moustakas A

J. Biol. Chem. 291 (24) 12706-12723 [2016-06-10; online 2016-04-21]

Affiliated researcher

PubMed DOI Crossref

Reciprocal voltage sensor-to-pore coupling leads to potassium channel C-type inactivation.

Conti L, Renhorn J, Gabrielsson A, ..., Lindahl E, Elinder F

Sci Rep 6 (-) 27562 [2016-06-09; online 2016-06-09]

Affiliated researcher

PubMed DOI Crossref

YM155, a small molecule inhibitor of survivin expression, sensitizes cancer cells to hypericin-mediated photodynamic therapy.

Gyurászová K, Mikeš J, Halaburková A, Jendželovský R, Fedoročko P

Photochem. Photobiol. Sci. 15 (6) 812-821 [2016-06-08; online 2016-05-31]

Affiliated researcher

PubMed DOI Crossref

Reorganization of Lipid Diffusion by Myelin Basic Protein as Revealed by STED Nanoscopy.

Steshenko O, Andrade DM, Honigmann A, ..., Simons M, Eggeling C

Biophys. J. 110 (11) 2441-2450 [2016-06-07; online 2016-06-09]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Recommendations on e-infrastructures for next-generation sequencing.

Spjuth O, Bongcam-Rudloff E, Dahlberg J, ..., Vezzi F, Korpelainen E

Gigascience 5 (-) 26 [2016-06-07; online 2016-06-07]

Affiliated researcher

PubMed DOI Crossref

RNA sequencing-based analysis of gallbladder cancer reveals the importance of the liver X receptor and lipid metabolism in gallbladder cancer.

Zuo M, Rashid A, Wang Y, ..., Roa JC, Javle M

Oncotarget 7 (23) 35302-35312 [2016-06-07; online 2016-05-12]

Affiliated researcher

PubMed DOI Crossref

Promiscuity in the Enzymatic Catalysis of Phosphate and Sulfate Transfer.

Pabis A, Duarte F, Kamerlin SC

Biochemistry 55 (22) 3061-3081 [2016-06-07; online 2016-05-26]

Affiliated researcher

PubMed DOI Crossref

Early predictors of behavioural problems in pre-schoolers - a longitudinal study of constitutional and environmental main and interaction effects.

Agnafors S, Sydsjö G, Comasco E, ..., Oreland L, Svedin CG

BMC Pediatr 16 (-) 76 [2016-06-07; online 2016-06-07]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Integrating multiple immunogenetic data sources for feature extraction and mining somatic hypermutation patterns: the case of "towards analysis" in chronic lymphocytic leukaemia.

Kavakiotis I, Xochelli A, Agathangelidis A, ..., Vlahavas I, Chouvarda I

BMC Bioinformatics 17 Suppl 5 (-) 173 [2016-06-06; online 2016-06-06]

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Genetic Basis for Red Coloration in Birds.

Lopes RJ, Johnson JD, Toomey MB, ..., Corbo JC, Carneiro M

Curr. Biol. 26 (11) 1427-1434 [2016-06-06; online 2016-05-19]

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Feasibility of Multiple Examinations Using (68)Ga-Labelled Collagelin Analogues: Organ Distribution in Rat for Extrapolation to Human Organ and Whole-Body Radiation Dosimetry.

Velikyan I, Rosenström U, Bulenga TN, Eriksson O, Antoni G

Pharmaceuticals (Basel, Switzerland) 9 (2) - [2016-06-06; online 2016-06-06]

Olof Eriksson SciLifeLab Fellow

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A comparative evaluation of data-merging and meta-analysis methods for reconstructing gene-gene interactions.

Lagani V, Karozou AD, Gomez-Cabrero D, Silberberg G, Tsamardinos I

BMC Bioinformatics 17 Suppl 5 (-) 194 [2016-06-06; online 2016-06-06]

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GenFamClust: an accurate, synteny-aware and reliable homology inference algorithm.

Ali RH, Muhammad SA, Arvestad L

BMC Evol Biol BMC Evolutionary Biology 16 (1) 120 [2016-06-04; online 2016-06-04]

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Elevated levels of FN1 and CCL2 in bronchoalveolar lavage fluid from sarcoidosis patients.

Hamsten C, Wiklundh E, Grönlund H, ..., Grunewald J, Häggmark-Månberg A

Respir. Res. 17 (1) 69 [2016-06-04; online 2016-06-04]

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TT-seq maps the human transient transcriptome.

Schwalb B, Michel M, Zacher B, ..., Gagneur J, Cramer P

Science 352 (6290) 1225-1228 [2016-06-03; online 2016-06-04]

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Comprehensive Proteomic Study of the Antiproliferative Activity of a Polyphenol-Enriched Rosemary Extract on Colon Cancer Cells Using Nanoliquid Chromatography-Orbitrap MS/MS.

Valdés A, Artemenko KA, Bergquist J, García-Cañas V, Cifuentes A

J. Proteome Res. 15 (6) 1971-1985 [2016-06-03; online 2016-04-29]

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Prognostic impact of epigenetic classification in chronic lymphocytic leukemia: The case of subset #2.

Bhoi S, Ljungström V, Baliakas P, ..., Rosenquist R, Mansouri L

Epigenetics 11 (6) 449-455 [2016-06-02; online 2016-04-29]

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Organization and Regulation of Mitochondrial Protein Synthesis.

Ott M, Amunts A, Brown A

Annu. Rev. Biochem. 85 (1) 77-101 [2016-06-02; online 2016-01-18]

Affiliated researcher Alexey Amunts SciLifeLab Fellow

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Mosaic Loss of Chromosome Y in Blood Is Associated with Alzheimer Disease.

Dumanski JP, Lambert JC, Rasi C, ..., Lind L, Forsberg LA

Am. J. Hum. Genet. 98 (6) 1208-1219 [2016-06-02; online 2016-05-23]

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c-Myb Enhances Breast Cancer Invasion and Metastasis through the Wnt/β-Catenin/Axin2 Pathway.

Li Y, Jin K, van Pelt GW, ..., Zhou F, Zhang L

Cancer Res. 76 (11) 3364-3375 [2016-06-01; online 2016-04-05]

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Variation at 2q35 (PNKD and TMBIM1) influences colorectal cancer risk and identifies a pleiotropic effect with inflammatory bowel disease.

Orlando G, Law PJ, Palin K, ..., Aaltonen LA, Houlston RS

Hum. Mol. Genet. 25 (11) 2349-2359 [2016-06-01; online 2016-03-22]

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Guidance Molecule SEMA3A Restricts Tumor Growth by Differentially Regulating the Proliferation of Tumor-Associated Macrophages.

Wallerius M, Wallmann T, Bartish M, ..., Andersson J, Rolny C

Cancer Res. 76 (11) 3166-3178 [2016-06-01; online 2016-04-06]

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A genomic approach to therapeutic target validation identifies a glucose-lowering GLP1R variant protective for coronary heart disease.

Scott RA, Freitag DF, Li L, ..., Wareham NJ, Waterworth DM

Sci Transl Med 8 (341) 341ra76 [2016-06-01; online 2016-06-03]

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Variation Interpretation Predictors: Principles, Types, Performance, and Choice.

Niroula A, Vihinen M

Hum. Mutat. 37 (6) 579-597 [2016-06-00; online 2016-04-15]

Abhishek Niroula DDLS Fellow

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Tracing the Archaeal Origins of Eukaryotic Membrane-Trafficking System Building Blocks.

Klinger CM, Spang A, Dacks JB, Ettema TJ

Mol. Biol. Evol. 33 (6) 1528-1541 [2016-06-00; online 2016-02-17]

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Single Chain Antibodies as Tools to Study transforming growth factor-β-Regulated SMAD Proteins in Proximity Ligation-Based Pharmacological Screens.

Blokzijl A, Zieba A, Hust M, ..., Dübel S, Landegren U

Mol. Cell Proteomics 15 (6) 1848-1856 [2016-06-00; online 2016-02-29]

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Identification of Multiple Loci Associated with Social Parasitism in Honeybees.

Wallberg A, Pirk CW, Allsopp MH, Webster MT

PLoS Genet 12 (6) e1006097 [2016-06-00; online 2016-06-09]

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High density of REC8 constrains sister chromatid axes and prevents illegitimate synaptonemal complex formation.

Agostinho A, Manneberg O, van Schendel R, ..., Brismar H, Höög C

EMBO Rep. 17 (6) 901-913 [2016-06-00; online 2016-05-11]

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Genetic variants associated with antithyroid drug-induced agranulocytosis: a genome-wide association study in a European population

Hallberg P, Eriksson N, Ibañez L, ..., Magnusson PKE, Wadelius M

The Lancet Diabetes & Endocrinology 4 (6) 507-516 [2016-06-00; online 2016-06-00]

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GPR44 is a pancreatic protein restricted to the human beta cell.

Hellström-Lindahl E, Danielsson A, Ponten F, ..., Johansson L, Eriksson O

Acta Diabetol 53 (3) 413-421 [2016-06-00; online 2015-10-14]

Affiliated researcher Olof Eriksson SciLifeLab Fellow

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Functional interplay between MSL1 and CDK7 controls RNA polymerase II Ser5 phosphorylation.

Chlamydas S, Holz H, Samata M, ..., Steinmetz LM, Akhtar A

Nat. Struct. Mol. Biol. 23 (6) 580-589 [2016-06-00; online 2016-05-16]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

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Epigenome-wide DNA methylation patterns associated with fatigue in primary Sjögren's syndrome.

Brække Norheim K, Imgenberg-Kreuz J, Jonsdottir K, ..., Nordmark G, Omdal R

Rheumatology (Oxford) 55 (6) 1074-1082 [2016-06-00; online 2016-03-10]

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Disruptive selection without genome-wide evolution across a migratory divide.

von Rönn JA, Shafer AB, Wolf JB

Mol. Ecol. 25 (11) 2529-2541 [2016-06-00; online 2016-03-09]

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Detection of Biomarkers with Solid-Phase Proximity Ligation Assay in Patients with Colorectal Cancer.

Ghanipour L, Darmanis S, Landegren U, ..., Påhlman L, Birgisson H

Transl Oncol 9 (3) 251-255 [2016-06-00; online 2016-06-09]

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Decreased fracture rate, pharmacogenetics and BMD response in 79 Swedish children with osteogenesis imperfecta types I, III and IV treated with Pamidronate.

Lindahl K, Kindmark A, Rubin CJ, ..., Ljunggren Ö, Åström E

Bone 87 (-) 11-18 [2016-06-00; online 2016-03-05]

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DNA damage signalling barrier, oxidative stress and treatment-relevant DNA repair factor alterations during progression of human prostate cancer.

Kurfurstova D, Bartkova J, Vrtel R, ..., Bouchal J, Bartek J

Mol Oncol 10 (6) 879-894 [2016-06-00; online 2016-03-03]

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An NK Cell Perforin Response Elicited via IL-18 Controls Mucosal Inflammation Kinetics during Salmonella Gut Infection.

Müller AA, Dolowschiak T, Sellin ME, ..., LeibundGut-Landmann S, Hardt WD

PLoS Pathog 12 (6) e1005723 [2016-06-00; online 2016-06-24]

Mikael Sellin SciLifeLab Fellow

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Allele-specific transcription factor binding in liver and cervix cells unveils many likely drivers of GWAS signals.

Cavalli M, Pan G, Nord H, ..., Wallerman O, Wadelius C

Genomics 107 (6) 248-254 [2016-06-00; online 2016-04-26]

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Affinity proteomics discovers decreased levels of AMFR in plasma from Osteoporosis patients.

Qundos U, Drobin K, Mattsson C, ..., Michaëlsson K, Schwenk JM

Proteomics Clin Appl 10 (6) 681-690 [2016-06-00; online 2015-04-21]

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A Complete Overhaul of the Electron Energy-Loss Spectroscopy and X-Ray Absorption Spectroscopy Database: eelsdb.eu.

Ewels P, Sikora T, Serin V, Ewels CP, Lajaunie L

Microsc. Microanal. 22 (3) 717-724 [2016-06-00; online 2016-02-22]

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Variants within the SP110 nuclear body protein modify risk of canine degenerative myelopathy.

Ivansson EL, Megquier K, Kozyrev SV, ..., Coates JR, Lindblad-Toh K

Proc. Natl. Acad. Sci. U.S.A. 113 (22) E3091-E3100 [2016-05-31; online 2016-05-16]

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Genome-culture coevolution promotes rapid divergence of killer whale ecotypes.

Foote AD, Vijay N, Ávila-Arcos MC, ..., Gilbert MT, Wolf JB

Nat Commun 7 (-) 11693 [2016-05-31; online 2016-05-31]

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Cross-talk between the Tissue Factor/coagulation factor VIIa complex and the tyrosine kinase receptor EphA2 in cancer.

Eriksson O, Thulin Å, Asplund A, ..., Navani S, Siegbahn A

BMC Cancer 16 (-) 341 [2016-05-31; online 2016-05-31]

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The POU/Oct Transcription Factor Pdm1/nub Is Necessary for a Beneficial Gut Microbiota and Normal Lifespan of Drosophila.

Dantoft W, Lundin D, Esfahani SS, Engström Y

J Innate Immun 8 (4) 412-426 [2016-05-28; online 2016-05-28]

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Thermotolerant yeasts selected by adaptive evolution express heat stress response at 30 °C.

Caspeta L, Chen Y, Nielsen J

Sci Rep 6 (-) 27003 [2016-05-27; online 2016-05-27]

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The Ubiquitin Ligases c-Cbl and Cbl-b Negatively Regulate Platelet-derived Growth Factor (PDGF) BB-induced Chemotaxis by Affecting PDGF Receptor β (PDGFRβ) Internalization and Signaling.

Rorsman C, Tsioumpekou M, Heldin CH, Lennartsson J

J. Biol. Chem. 291 (22) 11608-11618 [2016-05-27; online 2016-04-05]

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Heparin interactions with apoA1 and SAA in inflammation-associated HDL.

Digre A, Nan J, Frank M, Li JP

Biochem. Biophys. Res. Commun. 474 (2) 309-314 [2016-05-27; online 2016-04-20]

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Production of fatty acid-derived oleochemicals and biofuels by synthetic yeast cell factories.

Zhou YJ, Buijs NA, Zhu Z, ..., Siewers V, Nielsen J

Nat Commun 7 (-) 11709 [2016-05-25; online 2016-05-25]

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New technologies for DNA analysis--a review of the READNA Project.

McGinn S, Bauer D, Brefort T, ..., Willcocks JP, Gut IG

N Biotechnol 33 (3) 311-330 [2016-05-25; online 2015-10-26]

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Subnanometer Structure of an Asymmetric Model Membrane: Interleaflet Coupling Influences Domain Properties.

Heberle FA, Marquardt D, Doktorova M, ..., London E, Pabst G

Langmuir 32 (20) 5195-5200 [2016-05-24; online 2016-05-16]

DDLS Fellow Milka Doktorova

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A surprisingly poor correlation between in vitro and in vivo testing of biomaterials for bone regeneration: results of a multicentre analysis.

Hulsart-Billström G, Dawson JI, Hofmann S, ..., Larsson S, Oreffo RO

Eur Cell Mater 31 (-) 312-322 [2016-05-24; online 2016-05-24]

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Mitochondrial Evolution: Going, Going, Gone.

Burki F

Curr. Biol. 26 (10) R410-R412 [2016-05-23; online 2016-05-25]

Fabien Burki SciLifeLab Fellow

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Conditional Disease Development extracted from Longitudinal Health Care Cohort Data using Layered Network Construction.

Kannan V, Swartz F, Kiani NA, ..., Alexanderson K, Tegnèr J

Sci Rep 6 (-) 26170 [2016-05-23; online 2016-05-23]

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The mitogenome of a 35,000-year-old Homo sapiens from Europe supports a Palaeolithic back-migration to Africa.

Hervella M, Svensson EM, Alberdi A, ..., Netea MG, de-la-Rua C

Sci Rep 6 (-) 25501 [2016-05-19; online 2016-05-19]

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Metagenomic Analysis of the Indian Ocean Picocyanobacterial Community: Structure, Potential Function and Evolution.

Díez B, Nylander JA, Ininbergs K, ..., Rusch DB, Bergman B

PLoS ONE 11 (5) e0155757 [2016-05-19; online 2016-05-19]

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Minimal selective concentrations of tetracycline in complex aquatic bacterial biofilms.

Lundström SV, Östman M, Bengtsson-Palme J, ..., Flach CF, Larsson DGJ

Sci. Total Environ. 553 (-) 587-595 [2016-05-15; online 2016-03-22]

DDLS Fellow Johan Bengtsson-Palme

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Inclusion of dyad-repeat pattern improves topology prediction of transmembrane β-barrel proteins.

Hayat S, Peters C, Shu N, Tsirigos KD, Elofsson A

Bioinformatics 32 (10) 1571-1573 [2016-05-15; online 2016-01-21]

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B Cell Anergy Modulated by TLR1/2 and the miR-17∼92 Cluster Underlies the Indolent Clinical Course of Chronic Lymphocytic Leukemia Stereotyped Subset #4.

Ntoufa S, Papakonstantinou N, Apollonio B, ..., Ghia P, Stamatopoulos K

J. Immunol. 196 (10) 4410-4417 [2016-05-15; online 2016-04-08]

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Dynamic alterations of bone marrow cytokine landscape of myelodysplastic syndromes patients treated with 5-azacytidine.

Moudra A, Hubackova S, Machalova V, ..., Hodny Z, Jonasova A

Oncoimmunology 5 (10) e1183860 [2016-05-13; online 2016-05-13]

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Diversity of Pico- to Mesoplankton along the 2000 km Salinity Gradient of the Baltic Sea.

Hu YO, Karlson B, Charvet S, Andersson AF

Front Microbiol 7 (-) 679 [2016-05-12; online 2016-05-12]

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Significant association and synergistic adverse prognostic effect of podocalyxin-like protein and epidermal growth factor receptor expression in colorectal cancer.

Larsson AH, Lehn S, Wangefjord S, ..., Birgisson H, Jirström K

J Transl Med 14 (1) 128 [2016-05-10; online 2016-05-10]

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A Deletion in the Canine POMC Gene Is Associated with Weight and Appetite in Obesity-Prone Labrador Retriever Dogs.

Raffan E, Dennis RJ, O'Donovan CJ, ..., Yeo GS, O'Rahilly S

Cell Metab. 23 (5) 893-900 [2016-05-10; online 2016-05-03]

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Hyaluronic Acid Hydrogels Formed in Situ by Transglutaminase-Catalyzed Reaction.

Ranga A, Lutolf MP, Hilborn J, Ossipov DA

Biomacromolecules 17 (5) 1553-1560 [2016-05-09; online 2016-04-08]

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The cellular growth rate controls overall mRNA turnover, and modulates either transcription or degradation rates of particular gene regulons.

García-Martínez J, Delgado-Ramos L, Ayala G, ..., Chávez S, Pérez-Ortín JE

Nucleic Acids Res. 44 (8) 3643-3658 [2016-05-05; online 2015-12-29]

SciLifeLab Fellow Vicent Pelechano

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Identification of a Non-Pentapeptide Region Associated with Rapid Mycobacterial Evolution.

Warholm P, Light S

PLoS ONE 11 (5) e0154059 [2016-05-05; online 2016-05-05]

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Wnt Ligands Secreted by Subepithelial Mesenchymal Cells Are Essential for the Survival of Intestinal Stem Cells and Gut Homeostasis.

Valenta T, Degirmenci B, Moor AE, ..., Aguet M, Basler K

Cell Reports 15 (5) 911-918 [2016-05-03; online 2016-04-21]

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The genetic basis for ecological adaptation of the Atlantic herring revealed by genome sequencing.

Martinez Barrio A, Lamichhaney S, Fan G, ..., Xu X, Andersson L

Elife 5 (-) - [2016-05-03; online 2016-05-03]

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Epigenetic silencing of miR-26A1 in chronic lymphocytic leukemia and mantle cell lymphoma: Impact on EZH2 expression.

Kopparapu PK, Bhoi S, Mansouri L, ..., Rosenquist R, Kanduri M

Epigenetics 11 (5) 335-343 [2016-05-03; online 2016-04-06]

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TGF-β and the TGF-β Family: Context-Dependent Roles in Cell and Tissue Physiology.

Morikawa M, Derynck R, Miyazono K

Cold Spring Harbor Perspectives in Biology 8 (5) - [2016-05-02; online 2016-05-02]

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Investigating the Combinatory Effects of Biological Networks on Gene Co-expression.

Zhang C, Lee S, Mardinoglu A, Hua Q

Front. Physiol. 7 (-) 160 [2016-05-02; online 2016-05-02]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Vitamin D Induces Global Gene Transcription in Human Corneal Epithelial Cells: Implications for Corneal Inflammation.

Reins RY, Mesmar F, Williams C, McDermott AM

Invest. Ophthalmol. Vis. Sci. 57 (6) 2689-2698 [2016-05-01; online 2016-05-20]

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ProQ2: estimation of model accuracy implemented in Rosetta.

Uziela K, Wallner B

Bioinformatics 32 (9) 1411-1413 [2016-05-01; online 2016-01-05]

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nanoCAGE reveals 5' UTR features that define specific modes of translation of functionally related MTOR-sensitive mRNAs.

Gandin V, Masvidal L, Hulea L, ..., Larsson O, Topisirovic I

Genome Res. 26 (5) 636-648 [2016-05-00; online 2016-03-16]

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Utilizing the Dog Genome in the Search for Novel Candidate Genes Involved in Glioma Development-Genome Wide Association Mapping followed by Targeted Massive Parallel Sequencing Identifies a Strongly Associated Locus.

Truvé K, Dickinson P, Xiong A, ..., Bannasch D, Lindblad-Toh K

PLoS Genet 12 (5) e1006000 [2016-05-00; online 2016-05-12]

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Standardized benchmarking in the quest for orthologs.

Altenhoff AM, Boeckmann B, Capella-Gutierrez S, ..., Sonnhammer E, Dessimoz C

Nat. Methods 13 (5) 425-430 [2016-05-00; online 2016-04-04]

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Selection of optimal chelator improves the contrast of GRPR imaging using bombesin analogue RM26.

Mitran B, Varasteh Z, Selvaraju RK, ..., Rosenström U, Orlova A

Int. J. Oncol. 48 (5) 2124-2134 [2016-05-00; online 2016-03-09]

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Rpb1 foot mutations demonstrate a major role of Rpb4 in mRNA stability during stress situations in yeast.

Garrido-Godino AI, García-López MC, García-Martínez J, ..., Pérez-Ortín JE, Navarro F

Biochim. Biophys. Acta 1859 (5) 731-743 [2016-05-00; online 2016-03-18]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

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Potential of Synechocystis PCC 6803 as a novel cyanobacterial chassis for heterologous expression of enzymes in the trans-resveratrol biosynthetic pathway.

Tantong S, Incharoensakdi A, Sirikantaramas S, Lindblad P

Protein Expr. Purif. 121 (-) 163-168 [2016-05-00; online 2016-02-01]

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Molecular imaging of EGFR and CD44v6 for prediction and response monitoring of HSP90 inhibition in an in vivo squamous cell carcinoma model.

Spiegelberg D, Mortensen AC, Selvaraju RK, ..., Stenerlöw B, Nestor M

Eur. J. Nucl. Med. Mol. Imaging 43 (5) 974-982 [2016-05-00; online 2015-12-01]

Olof Eriksson SciLifeLab Fellow

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Microbial metagenomes from three aquifers in the Fennoscandian shield terrestrial deep biosphere reveal metabolic partitioning among populations.

Wu X, Holmfeldt K, Hubalek V, ..., Bertilsson S, Dopson M

ISME J 10 (5) 1192-1203 [2016-05-00; online 2015-10-20]

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DOI Crossref

Metaxa2 Diversity Tools: Easing microbial community analysis with Metaxa2

Bengtsson-Palme J, Thorell K, Wurzbacher C, Sjöling Å, Nilsson RH

Ecological Informatics 33 (-) 45-50 [2016-05-00; online 2016-05-00]

DDLS Fellow Johan Bengtsson-Palme

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Increased diversification rates follow shifts to bisexuality in liverworts.

Laenen B, Machac A, Gradstein SR, ..., Shaw AJ, Vanderpoorten A

New Phytol. 210 (3) 1121-1129 [2016-05-00; online 2016-02-01]

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In vitro and ex vivo vanadium antitumor activity in (TGF-β)-induced EMT. Synergistic activity with carboplatin and correlation with tumor metastasis in cancer patients.

Petanidis S, Kioseoglou E, Domvri K, ..., Moustakas A, Salifoglou A

Int. J. Biochem. Cell Biol. 74 (-) 121-134 [2016-05-00; online 2016-02-23]

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Genome-Wide Analysis Identifies Germ-Line Risk Factors Associated with Canine Mammary Tumours.

Melin M, Rivera P, Arendt M, ..., Rönnberg H, Lindblad-Toh K

PLoS Genet 12 (5) e1006029 [2016-05-00; online 2016-05-09]

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Genetic loci on chromosome 5 are associated with circulating levels of interleukin-5 and eosinophil count in a European population with high risk for cardiovascular disease.

McLeod O, Silveira A, Valdes-Marquez E, ..., Strawbridge RJ, IMPROVE Study Group

Cytokine 81 (-) 1-9 [2016-05-00; online 2016-01-25]

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Gap Filling as Exact Path Length Problem.

Salmela L, Sahlin K, Mäkinen V, Tomescu AI

J. Comput. Biol. 23 (5) 347-361 [2016-05-00; online 2016-03-09]

Affiliated researcher Kristoffer Sahlin SciLifeLab Fellow

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Functionalized silk assembled from a recombinant spider silk fusion protein (Z-4RepCT) produced in the methylotrophic yeast Pichia pastoris.

Jansson R, Lau CH, Ishida T, ..., Sandgren M, Hedhammar M

Biotechnol J 11 (5) 687-699 [2016-05-00; online 2016-03-04]

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Distinct temporal changes in host cell lncRNA expression during the course of an adenovirus infection.

Zhao H, Chen M, Lind SB, Pettersson U

Virology 492 (-) 242-250 [2016-05-00; online 2016-03-21]

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Codon-Driven Translational Efficiency Is Stable across Diverse Mammalian Cell States.

Rudolph KL, Schmitt BM, Villar D, ..., Kutter C, Odom DT

PLoS Genet 12 (5) e1006024 [2016-05-00; online 2016-05-11]

Affiliated researcher Claudia Kutter SciLifeLab Fellow

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Biotin and Thiamine Responsive Basal Ganglia Disease--A vital differential diagnosis in infants with severe encephalopathy.

Ygberg S, Naess K, Eriksson M, ..., Wedell A, Wickström R

Eur. J. Paediatr. Neurol. 20 (3) 457-461 [2016-05-00; online 2016-02-04]

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Antigen arrays for profiling autoantibody repertoires.

Ayoglu B, Schwenk JM, Nilsson P

Bioanalysis 8 (10) 1105-1126 [2016-05-00; online 2016-04-21]

Affiliated researcher

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Analysis of Mitochondrial DNA from a Burned, Ninhydrin-Treated Paper Towel.

Buś MM, Nilsson M, Allen M

J. Forensic Sci. 61 (3) 828-832 [2016-05-00; online 2016-02-25]

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Allele-specific transcription factor binding to common and rare variants associated with disease and gene expression.

Cavalli M, Pan G, Nord H, ..., Lindblad Toh K, Wadelius C

Hum. Genet. 135 (5) 485-497 [2016-05-00; online 2016-03-18]

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A Systematic Characterization of Aquaporin-9 Expression in Human Normal and Pathological Tissues.

Lindskog C, Asplund A, Catrina A, Nielsen S, Rützler M

J. Histochem. Cytochem. 64 (5) 287-300 [2016-05-00; online 2016-03-29]

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An Improved microRNA Annotation of the Canine Genome.

Penso-Dolfin L, Swofford R, Johnson J, ..., Moxon S, Di Palma F

PLoS ONE 11 (4) e0153453 [2016-04-27; online 2016-04-27]

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Systems biology analysis of hepatitis C virus infection reveals the role of copy number increases in regions of chromosome 1q in hepatocellular carcinoma metabolism.

Elsemman IE, Mardinoglu A, Shoaie S, Soliman TH, Nielsen J

Mol Biosyst 12 (5) 1496-1506 [2016-04-26; online 2016-04-05]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Smad6 determines BMP-regulated invasive behaviour of breast cancer cells in a zebrafish xenograft model.

de Boeck M, Cui C, Mulder AA, ..., Ikeno S, Ten Dijke P

Sci Rep 6 (-) 24968 [2016-04-26; online 2016-04-26]

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Elevated Levels of SOX10 in Serum from Vitiligo and Melanoma Patients, Analyzed by Proximity Ligation Assay.

Blokzijl A, Chen LE, Gustafsdottir SM, ..., Kamali-Moghaddam M, Hedstrand H

PLoS ONE 11 (4) e0154214 [2016-04-25; online 2016-04-25]

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Absolute quantification reveals the stable transmission of a high copy number variant linked to autoinflammatory disease.

Olsson M, Kierczak M, Karlsson Å, ..., Lindblad-Toh K, Meadows JR

BMC Genomics 17 (-) 299 [2016-04-23; online 2016-04-23]

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Effects of warming on a Mediterranean phytoplankton community

Pulina S, Brutemark A, Suikkanen S, ..., Sechi N, Lugliè A

Web Ecol. 16 (1) 89-92 [2016-04-22; online 2016-04-22]

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Minimizing antibody cross-reactivity in multiplex detection of biomarkers in paper-based point-of-care assays.

Dias JT, Lama L, Gantelius J, Andersson-Svahn H

Nanoscale 8 (15) 8195-8201 [2016-04-21; online 2016-04-01]

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Mechanism for excitation-dependent photoluminescence from graphene quantum dots and other graphene oxide derivates: consensus, debates and challenges.

Gan Z, Xu H, Hao Y

Nanoscale 8 (15) 7794-7807 [2016-04-21; online 2016-04-01]

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A Genome-wide CRISPR Screen Identifies CDC25A as a Determinant of Sensitivity to ATR Inhibitors.

Ruiz S, Mayor-Ruiz C, Lafarga V, ..., Ortega S, Fernandez-Capetillo O

Mol. Cell 62 (2) 307-313 [2016-04-21; online 2016-04-07]

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Proficient Detection of Multi-Drug-Resistant Mycobacterium tuberculosis by Padlock Probes and Lateral Flow Nucleic Acid Biosensors.

Pavankumar AR, Engström A, Liu J, Herthnek D, Nilsson M

Anal. Chem. 88 (8) 4277-4284 [2016-04-19; online 2016-04-04]

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Genetic and epigenetic background and protein expression profiles in relation to telomerase activation in medullary thyroid carcinoma.

Wang N, Kjellin H, Sofiadis A, ..., Lehtiö J, Larsson C

Oncotarget 7 (16) 21332-21346 [2016-04-19; online 2016-02-13]

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PubMed DOI Crossref

Improved topology prediction using the terminal hydrophobic helices rule.

Peters C, Tsirigos KD, Shu N, Elofsson A

Bioinformatics 32 (8) 1158-1162 [2016-04-15; online 2015-12-07]

Affiliated researcher

PubMed DOI Crossref

Hypoxic Signaling and the Cellular Redox Tumor Environment Determine Sensitivity to MTH1 Inhibition.

Bräutigam L, Pudelko L, Jemth AS, ..., Stenmark P, Helleday T

Cancer Res. 76 (8) 2366-2375 [2016-04-15; online 2016-02-09]

Affiliated researcher

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Cytosolic splice isoform of Hsp70 nucleotide exchange factor Fes1 is required for the degradation of misfolded proteins in yeast.

Gowda NK, Kaimal JM, Masser AE, ..., Friedländer MR, Andréasson C

Mol. Biol. Cell 27 (8) 1210-1219 [2016-04-15; online 2016-02-24]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Approaches to augment CAR T-cell therapy by targeting the apoptotic machinery.

Karlsson H

Biochem. Soc. Trans. 44 (2) 371-376 [2016-04-15; online 2016-04-14]

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An Immunogenetic Signature of Ongoing Antigen Interactions in Splenic Marginal Zone Lymphoma Expressing IGHV1-2*04 Receptors.

Bikos V, Karypidou M, Stalika E, ..., Hadzidimitriou A, Stamatopoulos K

Clin. Cancer Res. 22 (8) 2032-2040 [2016-04-15; online 2015-12-08]

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A New Way Forward in Cancer Drug Discovery: Inhibiting the SWI/SNF Chromatin Remodelling Complex.

Zinzalla G

Chembiochem 17 (8) 677-682 [2016-04-15; online 2016-01-28]

Affiliated researcher

PubMed DOI Crossref

RING finger protein 31 promotes p53 degradation in breast cancer cells.

Zhu J, Zhao C, Zhuang T, ..., Strömblad S, Dahlman-Wright K

Oncogene 35 (15) 1955-1964 [2016-04-14; online 2015-07-06]

Affiliated researcher

PubMed DOI Crossref

Heparan Sulfate: Biosynthesis, Structure, and Function.

Li JP, Kusche-Gullberg M

Int Rev Cell Mol Biol 325 (-) 215-273 [2016-04-13; online 2016-04-13]

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Immunostimulatory AdCD40L gene therapy combined with low-dose cyclophosphamide in metastatic melanoma patients.

Loskog A, Maleka A, Mangsbo S, ..., Tötterman TH, Ullenhag G

Br. J. Cancer 114 (8) 872-880 [2016-04-12; online 2016-03-31]

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Microchip Screening Platform for Single Cell Assessment of NK Cell Cytotoxicity.

Guldevall K, Brandt L, Forslund E, ..., Uhlin M, Önfelt B

Front Immunol 7 (-) 119 [2016-04-05; online 2016-04-05]

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PubMed DOI Crossref

mTORC1 and CK2 coordinate ternary and eIF4F complex assembly.

Gandin V, Masvidal L, Cargnello M, ..., Larsson O, Topisirovic I

Nat Commun 7 (-) 11127 [2016-04-04; online 2016-04-04]

Affiliated researcher

PubMed DOI Crossref

Transcriptomics resources of human tissues and organs.

Uhlén M, Hallström BM, Lindskog C, ..., Pontén F, Nielsen J

Mol Syst Biol 12 (4) 862 [2016-04-04; online 2016-04-04]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Label-Free Fluctuation Spectroscopy Based on Coherent Anti-Stokes Raman Scattering from Bulk Water Molecules.

Rabasovic MD, Sisamakis E, Wennmalm S, Widengren J

Chemphyschem 17 (7) 1025-1033 [2016-04-04; online 2016-02-11]

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3D Bioprinting of Tissue/Organ Models.

Pati F, Gantelius J, Svahn HA

Angew. Chem. Int. Ed. Engl. 55 (15) 4650-4665 [2016-04-04; online 2016-02-19]

Affiliated researcher

PubMed DOI Crossref

Streptavidin-modified monodispersed magnetic poly(2-hydroxyethyl methacrylate) microspheres as solid support in DNA-based molecular protocols.

Salih T, Ahlford A, Nilsson M, Plichta Z, Horák D

Mater Sci Eng C Mater Biol Appl 61 (-) 362-367 [2016-04-01; online 2015-12-30]

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Signals and Receptors.

Heldin CH, Lu B, Evans R, Gutkind JS

Cold Spring Harbor Perspectives in Biology 8 (4) a005900 [2016-04-01; online 2016-04-01]

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Na+-K+-ATPase, a new class of plasma membrane receptors.

Aperia A, Akkuratov EE, Fontana JM, Brismar H

Am. J. Physiol., Cell Physiol. 310 (7) C491-C495 [2016-04-01; online 2016-01-20]

Affiliated researcher

PubMed DOI Crossref

Genome-wide association and Mendelian randomization study of NT-proBNP in patients with acute coronary syndrome.

Johansson Å, Eriksson N, Lindholm D, ..., Wallentin L, PLATO Investigators

Hum. Mol. Genet. 25 (7) 1447-1456 [2016-04-01; online 2016-01-21]

Affiliated researcher

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CopyNumber450kCancer: baseline correction for accurate copy number calling from the 450k methylation array.

Marzouka NA, Nordlund J, Bäcklin CL, ..., Syvänen AC, Carlsson Almlöf J

Bioinformatics 32 (7) 1080-1082 [2016-04-01; online 2015-11-09]

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USP7 is a SUMO deubiquitinase essential for DNA replication.

Lecona E, Rodriguez-Acebes S, Specks J, ..., Mendez J, Fernandez-Capetillo O

Nat. Struct. Mol. Biol. 23 (4) 270-277 [2016-04-00; online 2016-03-07]

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The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons.

Braasch I, Gehrke AR, Smith JJ, ..., Lindblad-Toh K, Postlethwait JH

Nat. Genet. 48 (4) 427-437 [2016-04-00; online 2016-03-07]

Affiliated researcher

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The involvement of heparan sulfate proteoglycans in stem cell differentiation and in malignant glioma

Kundu S, Xiong A, Forsberg-Nilsson K

Eur. Phys. J. Plus 131 (4) - [2016-04-00; online 2016-04-08]

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The inflammatory inception of gallbladder cancer.

Espinoza JA, Bizama C, García P, ..., Koshiol J, Roa JC

Biochim. Biophys. Acta 1865 (2) 245-254 [2016-04-00; online 2016-03-12]

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The heterogeneity of human CD127(+) innate lymphoid cells revealed by single-cell RNA sequencing.

Björklund ÅK, Forkel M, Picelli S, ..., Sandberg R, Mjösberg J

Nat. Immunol. 17 (4) 451-460 [2016-04-00; online 2016-02-15]

Affiliated researcher

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Sleep duration, depression, and oxytocinergic genotype influence prepulse inhibition of the startle reflex in postpartum women.

Comasco E, Gulinello M, Hellgren C, ..., Sylven S, Sundström-Poromaa I

Eur Neuropsychopharmacol 26 (4) 767-776 [2016-04-00; online 2016-01-22]

Erika Comasco SciLifeLab Fellow

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Role of ribosomal protein mutations in tumor development (Review).

Goudarzi KM, Lindström MS

Int. J. Oncol. 48 (4) 1313-1324 [2016-04-00; online 2016-02-09]

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Promiscuity and electrostatic flexibility in the alkaline phosphatase superfamily.

Pabis A, Kamerlin SC

Curr. Opin. Struct. Biol. 37 (-) 14-21 [2016-04-00; online 2015-12-21]

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Prognostic indices in chronic lymphocytic leukaemia: where do we stand how do we proceed?

Baliakas P, Mattsson M, Stamatopoulos K, Rosenquist R

J. Intern. Med. 279 (4) 347-357 [2016-04-00; online 2015-12-28]

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Precaution for volume conduction in rodent cortical electroencephalography using high-density polyimide-based microelectrode arrays on the skull.

Stienen PJ, Venzi M, Poppendieck W, Hoffmann KP, Åberg E

J. Neurophysiol. 115 (4) 1970-1977 [2016-04-00; online 2016-02-10]

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One CNV Discordance in NRXN1 Observed Upon Genome-wide Screening in 38 Pairs of Adult Healthy Monozygotic Twins.

Magnusson PK, Lee D, Chen X, ..., Feuk L, Pawitan Y

Twin Res Hum Genet 19 (2) 97-103 [2016-04-00; online 2016-02-22]

Affiliated researcher

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Novel mode of inhibition by D-tagatose 6-phosphate through a Heyns rearrangement in the active site of transaldolase B variants.

Stellmacher L, Sandalova T, Schneider S, ..., Sprenger GA, Samland AK

Acta Crystallogr D Struct Biol 72 (Pt 4) 467-476 [2016-04-00; online 2016-03-24]

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NgR1: A Tunable Sensor Regulating Memory Formation, Synaptic, and Dendritic Plasticity.

Karlsson TE, Smedfors G, Brodin AT, ..., Brené S, Olson L

Cereb. Cortex 26 (4) 1804-1817 [2016-04-00; online 2016-02-02]

Affiliated researcher

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Neuroproteomic profiling of human body fluids.

Häggmark A, Schwenk JM, Nilsson P

Proteomics Clin Appl 10 (4) 485-502 [2016-04-00; online 2015-10-12]

Affiliated researcher

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Multiplexed protein profiling by sequential affinity capture.

Ayoglu B, Birgersson E, Mezger A, ..., Nilsson P, Schwenk JM

Proteomics 16 (8) 1251-1256 [2016-04-00; online 2016-03-31]

Affiliated researcher

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Motor neuron-like NSC-34 cells as a new model for the study of vitamin D metabolism in the brain.

Almokhtar M, Wikvall K, Ubhayasekera SJKA, Bergquist J, Norlin M

J. Steroid Biochem. Mol. Biol. 158 (-) 178-188 [2016-04-00; online 2015-12-15]

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Mechanistic Modeling of Pitavastatin Disposition in Sandwich-Cultured Human Hepatocytes: A Proteomics-Informed Bottom-Up Approach.

Vildhede A, Mateus A, Khan EK, ..., Artursson P, Kjellsson MC

Drug Metab. Dispos. 44 (4) 505-516 [2016-04-00; online 2016-02-03]

Affiliated researcher

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Introgression maintains the genetic integrity of the mating-type determining chromosome of the fungus Neurospora tetrasperma.

Corcoran P, Anderson JL, Jacobson DJ, ..., Lascoux M, Johannesson H

Genome Res. 26 (4) 486-498 [2016-04-00; online 2016-02-18]

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In Vivo Cytochrome P450 3A Isoenzyme Activity and Pharmacokinetics of Imatinib in Relation to Therapeutic Outcome in Patients With Chronic Myeloid Leukemia.

Skoglund K, Richter J, Olsson-Strömberg U, ..., Lotfi K, Gréen H

Ther Drug Monit 38 (2) 230-238 [2016-04-00; online 2015-12-24]

Affiliated researcher

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Identification of Drug-Like Inhibitors of Insulin-Regulated Aminopeptidase Through Small-Molecule Screening.

Engen K, Rosenström U, Axelsson H, ..., Lundbäck T, Larhed M

Assay Drug Dev Technol 14 (3) 180-193 [2016-04-00; online 2016-04-15]

Affiliated researcher

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Harmonising and linking biomedical and clinical data across disparate data archives to enable integrative cross-biobank research.

Spjuth O, Krestyaninova M, Hastings J, ..., Prokopenko I, Harris JR

Eur. J. Hum. Genet. 24 (4) 521-528 [2016-04-00; online 2015-08-26]

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Global gray-level thresholding based on object size.

Ranefall P, Wählby C

Cytometry A 89 (4) 385-390 [2016-04-00; online 2016-01-22]

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Genomic legacies of the progenitors and the evolutionary consequences of allopolyploidy.

Steige KA, Slotte T

Current Opinion in Plant Biology 30 (-) 88-93 [2016-04-00; online 2016-03-01]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Evolutionary Origins of Rhizarian Parasites.

Sierra R, Cañas-Duarte SJ, Burki F, ..., Arzul I, Pawlowski J

Mol. Biol. Evol. 33 (4) 980-983 [2016-04-00; online 2015-12-16]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

DeMix-Q: Quantification-Centered Data Processing Workflow.

Zhang B, Käll L, Zubarev RA

Mol. Cell Proteomics 15 (4) 1467-1478 [2016-04-00; online 2016-01-04]

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Commercially Available Preparations of Recombinant Wnt3a Contain Non-Wnt Related Activities Which May Activate TGF-β Signaling.

Carthy JM, Engström U, Heldin CH, Moustakas A

J. Cell. Biochem. 117 (4) 938-945 [2016-04-00; online 2015-09-22]

Affiliated researcher

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Binding to and Inhibition of Insulin-Regulated Aminopeptidase by Macrocyclic Disulfides Enhances Spine Density.

Diwakarla S, Nylander E, Grönbladh A, ..., Chai SY, Hallberg M

Molecular Pharmacology 89 (4) 413-424 [2016-04-00; online 2016-01-14]

Affiliated researcher

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Acute neuroinflammation in a clinically relevant focal cortical ischemic stroke model in rat: longitudinal positron emission tomography and immunofluorescent tracking.

Tóth M, Little P, Arnberg F, ..., Gulyás B, Holmin S

Brain Struct Funct 221 (3) 1279-1290 [2016-04-00; online 2015-01-20]

Affiliated researcher

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A multiple-phenotype imputation method for genetic studies.

Dahl A, Iotchkova V, Baud A, ..., Kranis A, Marchini J

Nat. Genet. 48 (4) 466-472 [2016-04-00; online 2016-02-22]

Affiliated researcher

PubMed DOI Crossref

Shotgun proteomics to unravel marine mussel (Mytilus edulis) response to long-term exposure to low salinity and propranolol in a Baltic Sea microcosm.

Campos A, Danielsson G, Farinha AP, ..., Warholm P, Cristobal S

J Proteomics 137 (-) 97-106 [2016-03-30; online 2016-01-26]

Affiliated researcher

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A Facile Synthesis of NODASA-Functionalized Peptide

Naicker T, Albericio F, Dutta J, ..., Kruger H, Govender T

Synlett 27 (11) 1685-1688 [2016-03-30; online 2016-03-30]

Affiliated researcher

PubMed

Alterations in the membrane-associated proteome fraction of alveolar macrophages in sarcoidosis.

Kjellin H, Silva E, Branca RM, ..., Lehtiö J, Wheelock ÅM

Sarcoidosis Vasc Diffuse Lung Dis 33 (1) 17-28 [2016-03-29; online 2016-03-29]

Affiliated researcher

PubMed DOI Crossref

Trigger Factor Reduces the Force Exerted on the Nascent Chain by a Cotranslationally Folding Protein.

Nilsson OB, Müller-Lucks A, Kramer G, Bukau B, von Heijne G

J. Mol. Biol. 428 (6) 1356-1364 [2016-03-27; online 2016-02-18]

Affiliated researcher

PubMed DOI Crossref

CETSA screening identifies known and novel thymidylate synthase inhibitors and slow intracellular activation of 5-fluorouracil.

Almqvist H, Axelsson H, Jafari R, ..., Lundbäck T, Nordlund P

Nat Commun 7 (-) 11040 [2016-03-24; online 2016-03-24]

Affiliated researcher

PubMed DOI Crossref

VEGFR2 pY949 signalling regulates adherens junction integrity and metastatic spread.

Li X, Padhan N, Sjöström EO, ..., Jansson L, Claesson-Welsh L

Nat Commun 7 (-) 11017 [2016-03-23; online 2016-03-23]

Affiliated researcher

PubMed DOI Crossref

System-wide Clinical Proteomics of Breast Cancer Reveals Global Remodeling of Tissue Homeostasis.

Pozniak Y, Balint-Lahat N, Rudolph JD, ..., Barshack I, Geiger T

Cell Systems 2 (3) 172-184 [2016-03-23; online 2016-03-03]

Affiliated researcher

PubMed DOI Crossref

Metagenomic analysis of bloodstream infections in patients with acute leukemia and therapy-induced neutropenia.

Gyarmati P, Kjellander C, Aust C, ..., Öhrmalm L, Giske CG

Sci Rep 6 (-) 23532 [2016-03-21; online 2016-03-21]

Affiliated researcher

PubMed DOI Crossref

PON-mt-tRNA: a multifactorial probability-based method for classification of mitochondrial tRNA variations.

Niroula A, Vihinen M

Nucleic Acids Res. 44 (5) 2020-2027 [2016-03-18; online 2016-02-03]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

On-Water Synthesis of Biaryl Sulfonyl Fluorides.

Chinthakindi PK, Kruger HG, Govender T, Naicker T, Arvidsson PI

J. Org. Chem. 81 (6) 2618-2623 [2016-03-18; online 2016-02-29]

Affiliated researcher

PubMed DOI Crossref

Next-generation bis-locked nucleic acids with stacking linker and 2'-glycylamino-LNA show enhanced DNA invasion into supercoiled duplexes.

Geny S, Moreno PM, Krzywkowski T, ..., Wengel J, Smith CI

Nucleic Acids Res. 44 (5) 2007-2019 [2016-03-18; online 2016-02-08]

Affiliated researcher

PubMed DOI Crossref

Multiple Gene Repression in Cyanobacteria Using CRISPRi.

Yao L, Cengic I, Anfelt J, Hudson EP

ACS Synth. Biol. 5 (3) 207-212 [2016-03-18; online 2015-12-28]

Affiliated researcher Paul Hudson SciLifeLab Fellow

PubMed DOI Crossref

Biological insertion of computationally designed short transmembrane segments.

Baeza-Delgado C, von Heijne G, Marti-Renom MA, Mingarro I

Sci Rep 6 (-) 23397 [2016-03-18; online 2016-03-18]

Affiliated researcher

PubMed DOI Crossref

PopulationProfiler: A Tool for Population Analysis and Visualization of Image-Based Cell Screening Data.

Matuszewski DJ, Wählby C, Puigvert JC, Sintorn IM

PLoS ONE 11 (3) e0151554 [2016-03-17; online 2016-03-17]

Affiliated researcher

PubMed DOI Crossref

In-depth quantitative analysis and comparison of the human hepatocyte and hepatoma cell line HepG2 proteomes.

Wiśniewski JR, Vildhede A, Norén A, Artursson P

J Proteomics 136 (-) 234-247 [2016-03-16; online 2016-01-26]

Affiliated researcher

PubMed DOI Crossref

Use of Time-Resolved Fluorescence To Improve Sensitivity and Dynamic Range of Gel-Based Proteomics.

Sandberg A, Buschmann V, Kapusta P, Erdmann R, Wheelock ÅM

Anal. Chem. 88 (6) 3067-3074 [2016-03-15; online 2016-02-22]

Affiliated researcher

PubMed DOI Crossref

NOD-like receptor signaling and inflammasome-related pathways are highlighted in psoriatic epidermis.

Tervaniemi MH, Katayama S, Skoog T, ..., Kere J, Elomaa O

Sci Rep 6 (-) 22745 [2016-03-15; online 2016-03-15]

Affiliated researcher

PubMed DOI Crossref

Landscape and Dynamics of Transcription Initiation in the Malaria Parasite Plasmodium falciparum.

Adjalley SH, Chabbert CD, Klaus B, Pelechano V, Steinmetz LM

Cell Reports 14 (10) 2463-2475 [2016-03-15; online 2016-03-03]

Affiliated researcher SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

FoCuS-point: software for STED fluorescence correlation and time-gated single photon counting.

Waithe D, Clausen MP, Sezgin E, Eggeling C

Bioinformatics 32 (6) 958-960 [2016-03-15; online 2015-11-20]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Luminescent Nanocellulose Platform: From Controlled Graft Block Copolymerization to Biomarker Sensing.

Navarro JR, Wennmalm S, Godfrey J, Breitholtz M, Edlund U

Biomacromolecules 17 (3) 1101-1109 [2016-03-14; online 2016-01-29]

Affiliated researcher

PubMed DOI Crossref

Glycation Reactivity of a Quorum-Sensing Signaling Molecule.

Tsuchikama K, Gooyit M, Harris TL, ..., Kaufmann GF, Janda KD

Angew. Chem. Int. Ed. Engl. 55 (12) 4002-4006 [2016-03-14; online 2016-02-17]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Kinetically Selective Inhibitors of Human Carbonic Anhydrase Isozymes I, II, VII, IX, XII, and XIII.

Talibov VO, Linkuvienė V, Matulis D, Danielson UH

J. Med. Chem. 59 (5) 2083-2093 [2016-03-10; online 2016-02-08]

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PubMed DOI Crossref

Engineering Cellular Metabolism.

Nielsen J, Keasling JD

Cell 164 (6) 1185-1197 [2016-03-10; online 2016-03-12]

Affiliated researcher

PubMed DOI Crossref

Evolutionary history of host use, rather than plant phylogeny, determines gene expression in a generalist butterfly.

Celorio-Mancera Mde L, Wheat CW, Huss M, ..., Nylin S, Janz N

BMC Evol Biol BMC Evolutionary Biology 16 (-) 59 [2016-03-08; online 2016-03-08]

Affiliated researcher

PubMed DOI Crossref

Whole genome sequencing identifies a novel species of the genus Capnocytophaga isolated from dog and cat bite wounds in humans.

Zangenah S, Abbasi N, Andersson AF, Bergman P

Sci Rep 6 (-) 22919 [2016-03-07; online 2016-03-07]

Affiliated researcher

PubMed DOI Crossref

Mechanistic investigation of the on-surface enzymatic digestion (oSED) protein adsorption detection method using targeted mass spectrometry.

Undin T, Dahlin A, Hörnaeus K, Bergquist J, Lind SB

Analyst 141 (5) 1714-1720 [2016-03-07; online 2016-02-13]

Affiliated researcher

PubMed DOI Crossref

Lesion Size Is Exacerbated in Hypoxic Rats Whereas Hypoxia-Inducible Factor-1 Alpha and Vascular Endothelial Growth Factor Increase in Injured Normoxic Rats: A Prospective Cohort Study of Secondary Hypoxia in Focal Traumatic Brain Injury.

Thelin EP, Frostell A, Mulder J, ..., Morganti-Kossmann MC, Bellander BM

Front Neurol 7 (-) 23 [2016-03-07; online 2016-03-07]

Affiliated researcher

PubMed DOI Crossref

Influence of mutations at the proximal histidine position on the Fe-O2 bond in hemoglobin from density functional theory.

Todde G, Hovmöller S, Laaksonen A

J Chem Phys 144 (9) 095101 [2016-03-07; online 2016-03-10]

Affiliated researcher

PubMed DOI Crossref

Analysis of the Cerebrospinal Fluid Proteome in Alzheimer's Disease.

Khoonsari PE, Häggmark A, Lönnberg M, ..., Kultima K, Shevchenko G

PLoS ONE 11 (3) e0150672 [2016-03-07; online 2016-03-07]

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PubMed DOI Crossref

MaRaCluster: A Fragment Rarity Metric for Clustering Fragment Spectra in Shotgun Proteomics.

The M, Käll L

J. Proteome Res. 15 (3) 713-720 [2016-03-04; online 2016-01-12]

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PubMed DOI Crossref

AP-1 Is a Key Regulator of Proinflammatory Cytokine TNFα-mediated Triple-negative Breast Cancer Progression.

Qiao Y, He H, Jonsson P, ..., Zhao C, Dahlman-Wright K

J. Biol. Chem. 291 (10) 5068-5079 [2016-03-04; online 2016-01-20]

Affiliated researcher

PubMed DOI Crossref

Fast, accurate, and lightweight analysis of BS-treated reads with ERNE 2.

Prezza N, Vezzi F, Käller M, Policriti A

BMC Bioinformatics 17 Suppl 4 (-) 69 [2016-03-02; online 2016-03-02]

Affiliated researcher

PubMed DOI Crossref

Cells release subpopulations of exosomes with distinct molecular and biological properties.

Willms E, Johansson HJ, Mäger I, ..., Wood MJ, Vader P

Sci Rep 6 (-) 22519 [2016-03-02; online 2016-03-02]

Affiliated researcher

PubMed DOI Crossref

The MHC Class I Cancer-Associated Neoepitope Trh4 Linked with Impaired Peptide Processing Induces a Unique Noncanonical TCR Conformer.

Hafstrand I, Doorduijn EM, Duru AD, ..., van Hall T, Achour A

J. Immunol. 196 (5) 2327-2334 [2016-03-01; online 2016-01-22]

Affiliated researcher

PubMed DOI Crossref

Specific small-RNA signatures in the amygdala at premotor and motor stages of Parkinson's disease revealed by deep sequencing analysis.

Pantano L, Friedländer MR, Escaramís G, ..., Estivill X, Martí E

Bioinformatics 32 (5) 673-681 [2016-03-01; online 2015-11-02]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Polymorphisms in genes in the androgen pathway and risk of Barrett's esophagus and esophageal adenocarcinoma.

Ek WE, Lagergren K, Cook M, ..., Westberg L, Lagergren J

Int. J. Cancer 138 (5) 1146-1152 [2016-03-01; online 2015-10-05]

Affiliated researcher

PubMed DOI Crossref

Metabolic Trade-offs in Yeast are Caused by F1F0-ATP synthase.

Nilsson A, Nielsen J

Sci Rep 6 (-) 22264 [2016-03-01; online 2016-03-01]

Avlant Nilsson DDLS Fellow

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Estrogen receptor beta as target for colorectal cancer prevention.

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Ying S, Chen Z, Medhurst AL, ..., Meek K, Helleday T

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Kryvokhyzha D, Holm K, Chen J, ..., Lagercrantz U, Lascoux M

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Eur. Respir. J. 47 (3) 898-909 [2016-03-00; online 2015-11-19]

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Singh P, Couckuyt I, Elsayed K, Deschrijver D, Dhaene T

Applied Mathematical Modelling 40 (5-6) 4248-4259 [2016-03-00; online 2016-03-00]

Prashant Singh SciLifeLab Fellow

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Isaksson R, Kumpiņa I, Larhed M, Wannberg J

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Manojlovic-Gacic E, Skender-Gazibara M, Popovic V, ..., Pontén F, Casar-Borota O

Endocr. Pathol. 27 (1) 1-11 [2016-03-00; online 2015-11-18]

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Marabita F, de Candia P, Torri A, ..., Abrignani S, Rossi RL

Brief. Bioinformatics 17 (2) 204-212 [2016-03-00; online 2015-08-03]

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Rölle A, Brodin P

Trends Immunol. 37 (3) 233-243 [2016-03-00; online 2016-02-09]

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J. Med. Genet. 53 (3) 190-199 [2016-03-00; online 2016-01-06]

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Laenen B, Machac A, Gradstein SR, ..., Shaw J, Vanderpoorten A

J. Biogeogr. 43 (3) 627-635 [2016-03-00; online 2015-11-04]

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Perisic L, Aldi S, Sun Y, ..., Paulsson-Berne G, Hedin U

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Logue JB, Stedmon CA, Kellerman AM, ..., Lindström ES, Kritzberg ES

ISME J 10 (3) 533-545 [2016-03-00; online 2015-08-21]

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Semin. Cell Dev. Biol. 51 (-) 44-52 [2016-03-00; online 2016-02-03]

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Ambrogio C, Gómez-López G, Falcone M, ..., Santamaría D, Barbacid M

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Kaczmarzyk D, Hudson EP, Fulda M

AMB Expr 6 (1) 7 [2016-03-00; online 2016-01-21]

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Kirchner H, Sinha I, Gao H, ..., Dahlman-Wright K, Zierath JR

Mol Metab 5 (3) 171-183 [2016-03-00; online 2016-01-02]

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Källsten M, Bergquist J, Zhao H, Konzer A, Lind SB

Anal Bioanal Chem 408 (9) 2347-2356 [2016-03-00; online 2016-02-17]

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Adler C, Schönenberger M, Teleki A, Kuentz M

Int J Pharm 499 (1-2) 90-100 [2016-02-29; online 2015-12-22]

Alexandra Teleki SciLifeLab Fellow

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Schwieler L, Samuelsson M, Frye MA, ..., Sellgren CM, Erhardt S

J Neuroinflammation 13 (1) 51 [2016-02-29; online 2016-02-29]

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Ljungström V, Cortese D, Young E, ..., Sjöblom T, Rosenquist R

Blood 127 (8) 1007-1016 [2016-02-25; online 2015-12-16]

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Turdalieva A, Solandt J, Shambetova N, ..., Zelenina M, Fu Y

PLoS ONE 11 (2) e0149915 [2016-02-25; online 2016-02-25]

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Lind AL, Wu D, Freyhult E, ..., Landegren U, Kamali-Moghaddam M

PLoS ONE 11 (2) e0149821 [2016-02-25; online 2016-02-25]

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Structures of Two Melanoma-Associated Antigens Suggest Allosteric Regulation of Effector Binding.

Newman JA, Cooper CD, Roos AK, ..., Osman R, Gileadi O

PLoS ONE 11 (2) e0148762 [2016-02-24; online 2016-02-24]

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An Efficient Protecting-Group-Free Synthesis of Vinylic Sulfoximines via Horner–Wadsworth–Emmons Reaction

Naicker T, Arvidsson P, Chinthakindi P, ..., Govender T, Kruger H

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Ayoglu B, Mitsios N, Kockum I, ..., Olsson T, Nilsson P

Proc. Natl. Acad. Sci. U.S.A. 113 (8) 2188-2193 [2016-02-23; online 2016-02-09]

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Harada BT, Hwang WL, Deindl S, ..., Bartholomew B, Zhuang X

Elife 5 (-) - [2016-02-19; online 2016-02-19]

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Org. Process Res. Dev. 20 (2) 440-445 [2016-02-19; online 2016-01-05]

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Eketjäll S, Janson J, Kaspersson K, ..., Alexander RC, Cebers G

J. Alzheimers Dis. 50 (4) 1109-1123 [2016-02-19; online 2016-02-19]

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Sci Rep 6 (-) 21134 [2016-02-18; online 2016-02-18]

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Nat. Microbiol 1 (-) 16002 [2016-02-15; online 2016-02-15]

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Ek WE, Hedman ÅK, Enroth S, ..., Lind L, Johansson Å

Hum. Mol. Genet. 25 (4) 817-827 [2016-02-15; online 2015-12-17]

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Thutkawkorapin J, Picelli S, Kontham V, ..., Nilsson D, Lindblom A

BMC Genet. 17 (-) 41 [2016-02-13; online 2016-02-13]

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Mortusewicz O, Evers B, Helleday T

Oncogene 35 (6) 761-770 [2016-02-11; online 2015-05-11]

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Llona-Minguez S, Höglund A, Jacques SA, ..., Scobie M, Helleday T

J. Med. Chem. 59 (3) 1140-1148 [2016-02-11; online 2016-01-27]

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Mahjani B, Toor S, Nettelblad C, Holmgren S

IEEE/ACM Trans Comput Biol Bioinform 14 (2) 381-392 [2016-02-11; online 2016-02-11]

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Agarwal P, Alzrigat M, Párraga AA, ..., Kalushkova A, Jernberg-Wiklund H

Oncotarget 7 (6) 6809-6823 [2016-02-09; online 2016-01-13]

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Liu F, Koval M, Ranganathan S, ..., Kelleher NL, Baker MS

J. Proteome Res. 15 (2) 339-359 [2016-02-05; online 2016-01-12]

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Alam MT, Zelezniak A, Mülleder M, ..., Lilley KS, Ralser M

Nat. Microbiol 1 (3) 15030 [2016-02-01; online 2016-02-01]

Aleksej Zelezniak SciLifeLab Fellow

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Moudry P, Watanabe K, Wolanin KM, ..., Lukas J, Bartek J

J. Cell Biol. 212 (3) 281-288 [2016-02-01; online 2016-01-25]

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Landegren N, Sharon D, Freyhult E, ..., Snyder M, Kämpe O

Sci Rep 6 (-) 20104 [2016-02-01; online 2016-02-01]

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New loci for body fat percentage reveal link between adiposity and cardiometabolic disease risk.

Lu Y, Day FR, Gustafsson S, ..., Kilpeläinen TO, Loos RJ

Nat Commun 7 (-) 10495 [2016-02-01; online 2016-02-01]

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Kilpeläinen TO, Carli JF, Skowronski AA, ..., Leibel RL, Loos RJ

Nat Commun 7 (-) 10494 [2016-02-01; online 2016-02-01]

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Puumalainen MR, Rüthemann P, Min JH, Naegeli H

Cell. Mol. Life Sci. 73 (3) 547-566 [2016-02-00; online 2015-10-31]

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The Proteome of Filter-Grown Caco-2 Cells With a Focus on Proteins Involved in Drug Disposition.

Ölander M, Wiśniewski JR, Matsson P, Lundquist P, Artursson P

J Pharm Sci 105 (2) 817-827 [2016-02-00; online 2016-01-09]

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TAP-independent self-peptides enhance T cell recognition of immune-escaped tumors.

Doorduijn EM, Sluijter M, Querido BJ, ..., van der Burg SH, van Hall T

J. Clin. Invest. 126 (2) 784-794 [2016-02-00; online 2016-01-19]

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Six Novel Loci Associated with Circulating VEGF Levels Identified by a Meta-analysis of Genome-Wide Association Studies.

Choi SH, Ruggiero D, Sorice R, ..., Seshadri S, Ciullo M

PLoS Genet 12 (2) e1005874 [2016-02-00; online 2016-02-24]

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Simvastatin and zinc synergistically enhance osteoblasts activity and decrease the acute response of inflammatory cells.

Montazerolghaem M, Ning Y, Engqvist H, ..., Tenje M, Mestres G

J Mater Sci Mater Med 27 (2) 23 [2016-02-00; online 2015-12-24]

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Sadanandan SK, Baltekin O, Magnusson KEG, ..., Elf J, Wahlby C

IEEE J. Sel. Top. Signal Process. 10 (1) 174-184 [2016-02-00; online 2016-02-00]

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Regulatory mutations in TBX3 disrupt asymmetric hair pigmentation that underlies Dun camouflage color in horses.

Imsland F, McGowan K, Rubin CJ, ..., Barsh GS, Andersson L

Nat. Genet. 48 (2) 152-158 [2016-02-00; online 2015-12-21]

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RAD-seq data point to a northern origin of the arctic-alpine genus Cassiope (Ericaceae).

Hou Y, Nowak MD, Mirré V, ..., Brochmann C, Popp M

Mol. Phylogenet. Evol. 95 (-) 152-160 [2016-02-00; online 2015-12-09]

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Oufti: an integrated software package for high-accuracy, high-throughput quantitative microscopy analysis.

Paintdakhi A, Parry B, Campos M, ..., Surovtsev I, Jacobs-Wagner C

Mol. Microbiol. 99 (4) 767-777 [2016-02-00; online 2015-12-18]

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Next-generation sequencing of the basal cell carcinoma miRNome and a description of novel microRNA candidates under neoadjuvant vismodegib therapy: an integrative molecular and surgical case study.

Sand M, Bechara FG, Gambichler T, ..., Schnabel R, Hessam S

Ann. Oncol. 27 (2) 332-338 [2016-02-00; online 2015-11-16]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

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Davis H, Raja E, Miyazono K, Tsubakihara Y, Moustakas A

Cytokine Growth Factor Rev. 27 (-) 81-92 [2016-02-00; online 2015-11-24]

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Genome-wide quantification of 5'-phosphorylated mRNA degradation intermediates for analysis of ribosome dynamics.

Pelechano V, Wei W, Steinmetz LM

Nat Protoc 11 (2) 359-376 [2016-02-00; online 2016-01-28]

SciLifeLab Fellow Vicent Pelechano

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Elsässer SJ, Ernst RJ, Walker OS, Chin JW

Nat. Methods 13 (2) 158-164 [2016-02-00; online 2016-01-04]

SciLifeLab Fellow Simon Elsässer

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Mäkinen N, Aavikko M, Heikkinen T, ..., Bützow R, Vahteristo P

PLoS Genet 12 (2) e1005850 [2016-02-00; online 2016-02-18]

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Evaluation of a novel type of imaging probe based on a recombinant bivalent mini-antibody construct for detection of CD44v6-expressing squamous cell carcinoma.

Haylock AK, Spiegelberg D, Mortensen AC, ..., Tolmachev V, Nestor MV

Int. J. Oncol. 48 (2) 461-470 [2016-02-00; online 2015-12-14]

Olof Eriksson SciLifeLab Fellow

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Limbach M, Saare M, Tserel L, ..., Milani L, Peterson P

J. Autoimmun. 67 (-) 46-56 [2016-02-00; online 2015-10-12]

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Decreased levels of stem cell factor in subjects with incident coronary events.

Wigren M, Rattik S, Hultman K, ..., Gonçalves I, Nilsson J

J. Intern. Med. 279 (2) 180-191 [2016-02-00; online 2015-10-14]

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Correlating chemical sensitivity and basal gene expression reveals mechanism of action.

Rees MG, Seashore-Ludlow B, Cheah JH, ..., Shamji AF, Schreiber SL

Nat. Chem. Biol. 12 (2) 109-116 [2016-02-00; online 2015-12-14]

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Control of growth factor binding and release in bisphosphonate functionalized hydrogels guides rapid differentiation of precursor cells in vitro.

Kootala S, Zhang Y, Ghalib S, ..., Hilborn J, Ossipov DA

Biomater Sci 4 (2) 250-254 [2016-02-00; online 2015-11-28]

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Computational Cancer Biology: An Evolutionary Perspective.

Beerenwinkel N, Greenman CD, Lagergren J

PLoS Comput Biol 12 (2) e1004717 [2016-02-00; online 2016-02-04]

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Complete Knockout of Endogenous Mdr1 ( Abcb1 ) in MDCK Cells by CRISPR-Cas9

Simoff I, Karlgren M, Backlund M, ..., Matsson P, Artursson P

Journal of Pharmaceutical Sciences 105 (2) 1017-1021 [2016-02-00; online 2016-02-00]

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Cardiovascular disease and mortality after a first episode of venous thromboembolism in young and middle-aged women.

Ljungqvist M, Holmström M, Kieler H, Odeberg J, Lärfars G

Thromb. Res. 138 (-) 80-85 [2016-02-00; online 2015-12-02]

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Association between levels of pentraxin 3 and incidence of chronic kidney disease in the elderly.

Sjöberg B, Qureshi AR, Heimbürger O, ..., Bárány P, Ärnlöv J

J. Intern. Med. 279 (2) 173-179 [2016-02-00; online 2015-09-09]

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Are freshwater bacterioplankton indifferent to variable types of amino acid substrates?

Ricão Canelhas M, Eiler A, Bertilsson S

FEMS Microbiol. Ecol. 92 (2) - [2016-02-00; online 2016-01-05]

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Analysis of hepatitis C NS5A resistance associated polymorphisms using ultra deep single molecule real time (SMRT) sequencing.

Bergfors A, Leenheer D, Bergqvist A, Ameur A, Lennerstrand J

Antiviral Res. 126 (-) 81-89 [2016-02-00; online 2015-12-19]

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Active transposable elements recover species boundaries and geographic structure in Madagascan coffee species.

Roncal J, Guyot R, Hamon P, ..., Davis AP, de Kochko A

Mol. Genet. Genomics 291 (1) 155-168 [2016-02-00; online 2015-08-01]

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A comparative study on fluorescent cholesterol analogs as versatile cellular reporters.

Sezgin E, Can FB, Schneider F, ..., Platt F, Eggeling C

J. Lipid Res. 57 (2) 299-309 [2016-02-00; online 2015-12-23]

Erdinc Sezgin SciLifeLab Fellow

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Maya-Mendoza A, Bartek J, Jackson DA, Streuli CH

Cell Cycle 15 (3) 345-356 [2016-01-29; online 2016-01-29]

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Atomistic Simulation of Protein Encapsulation in Metal-Organic Frameworks.

Zhang H, Lv Y, Tan T, van der Spoel D

J Phys Chem B 120 (3) 477-484 [2016-01-28; online 2016-01-15]

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Untangling the early diversification of eukaryotes: a phylogenomic study of the evolutionary origins of Centrohelida, Haptophyta and Cryptista.

Burki F, Kaplan M, Tikhonenkov DV, ..., Mylnikov AP, Keeling PJ

Proc. Biol. Sci. 283 (1823) 20152802 [2016-01-27; online 2016-01-27]

Fabien Burki SciLifeLab Fellow

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Christoffersson G, Rodriguez-Calvo T, von Herrath M

F1000Res 5 (-) - [2016-01-27; online 2016-01-27]

Gustaf Christoffersson SciLifeLab Fellow

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Photoactivation of Mutant Isocitrate Dehydrogenase 2 Reveals Rapid Cancer-Associated Metabolic and Epigenetic Changes.

Walker OS, Elsässer SJ, Mahesh M, ..., Balasubramanian S, Chin JW

Journal of the American Chemical Society 138 (3) 718-721 [2016-01-27; online 2016-01-12]

SciLifeLab Fellow Simon Elsässer

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Looking beyond GWAS: allele-specific transcription factor binding drives the association of GALNT2 to HDL-C plasma levels.

Cavalli M, Pan G, Nord H, Wadelius C

Lipids Health Dis 15 (-) 18 [2016-01-27; online 2016-01-27]

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Genomic sequencing of a dyslexia susceptibility haplotype encompassing ROBO1.

Massinen S, Wang J, Laivuori K, ..., Jiao H, Kere J

J Neurodev Disord 8 (-) 4 [2016-01-27; online 2016-01-27]

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Personalized Cardiovascular Disease Prediction and Treatment-A Review of Existing Strategies and Novel Systems Medicine Tools.

Björnson E, Borén J, Mardinoglu A

Front. Physiol. 7 (-) 2 [2016-01-26; online 2016-01-26]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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HPA Axis Gene Expression and DNA Methylation Profiles in Rats Exposed to Early Life Stress, Adult Voluntary Ethanol Drinking and Single Housing.

Todkar A, Granholm L, Aljumah M, ..., Comasco E, Nylander I

Front Mol Neurosci 8 (-) 90 [2016-01-26; online 2016-01-26]

Erika Comasco SciLifeLab Fellow

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A survey of best practices for RNA-seq data analysis.

Conesa A, Madrigal P, Tarazona S, ..., Zhang X, Mortazavi A

Genome Biol. 17 (-) 13 [2016-01-26; online 2016-01-26]

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Exploration of Interfacial Hydration Networks of Target-Ligand Complexes.

Jeszenői N, Bálint M, Horváth I, van der Spoel D, Hetényi C

J Chem Inf Model 56 (1) 148-158 [2016-01-25; online 2016-01-08]

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Proadifen sensitizes resistant ovarian adenocarcinoma cells to cisplatin.

Jendželovský R, Jendželovská Z, Hiľovská L, ..., Mikeš J, Fedoročko P

Toxicol. Lett. 243 (-) 56-66 [2016-01-22; online 2015-12-22]

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Genetic associations at 53 loci highlight cell types and biological pathways relevant for kidney function.

Pattaro C, Teumer A, Gorski M, ..., Kao WH, Fox CS

Nat Commun 7 (-) 10023 [2016-01-21; online 2016-01-21]

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Reconstructing ecosystem functions of the active microbial community of the Baltic Sea oxygen depleted sediments.

Thureborn P, Franzetti A, Lundin D, Sjöling S

PeerJ 4 (-) e1593 [2016-01-19; online 2016-01-19]

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Interferon-γ-induced p27KIP1 binds to and targets MYC for proteasome-mediated degradation.

Bahram F, Hydbring P, Tronnersjö S, ..., Castell A, Larsson LG

Oncotarget 7 (3) 2837-2854 [2016-01-19; online 2015-12-25]

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Treatment with Tacrolimus and Sirolimus Reveals No Additional Adverse Effects on Human Islets In Vitro Compared to Each Drug Alone but They Are Reduced by Adding Glucocorticoids.

Kloster-Jensen K, Sahraoui A, Vethe NT, ..., Foss A, Scholz H

J Diabetes Res 2016 (-) 4196460 [2016-01-18; online 2016-01-18]

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Unraveling Entropic Rate Acceleration Induced by Solvent Dynamics in Membrane Enzymes.

Kürten C, Syrén PO

J Vis Exp - (107) e53168 [2016-01-16; online 2016-01-16]

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Using Whole-Exome Sequencing to Identify Genetic Markers for Carboplatin and Gemcitabine-Induced Toxicities.

Gréen H, Hasmats J, Kupershmidt I, ..., Peterson C, Lundeberg J

Clin. Cancer Res. 22 (2) 366-373 [2016-01-15; online 2015-09-16]

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Predicting unintended effects of drugs based on off-target tissue effects.

Kim D, Lee J, Lee S, Park J, Lee D

Biochem. Biophys. Res. Commun. 469 (3) 399-404 [2016-01-15; online 2015-12-02]

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A meta-analysis of 120 246 individuals identifies 18 new loci for fibrinogen concentration.

de Vries PS, Chasman DI, Sabater-Lleal M, ..., Strachan DP, Dehghan A

Hum. Mol. Genet. 25 (2) 358-370 [2016-01-15; online 2015-11-10]

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Depression or anxiety and all-cause mortality in adults with atrial fibrillation--A cohort study in Swedish primary care.

Wändell P, Carlsson AC, Gasevic D, ..., Sundquist J, Sundquist K

Ann. Med. 48 (1-2) 59-66 [2016-01-13; online 2016-01-13]

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Understanding TRPV1 activation by ligands: Insights from the binding modes of capsaicin and resiniferatoxin.

Elokely K, Velisetty P, Delemotte L, ..., Rohacs T, Carnevale V

Proc. Natl. Acad. Sci. U.S.A. 113 (2) E137-E145 [2016-01-12; online 2015-12-30]

Lucie Delemotte SciLifeLab Fellow

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The protein kinase LKB1 negatively regulates bone morphogenetic protein receptor signaling.

Raja E, Tzavlaki K, Vuilleumier R, ..., Heldin CH, Moustakas A

Oncotarget 7 (2) 1120-1143 [2016-01-12; online 2015-12-25]

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Spatial sexual dimorphism of X and Y homolog gene expression in the human central nervous system during early male development.

Johansson MM, Lundin E, Qian X, ..., Nilsson M, Jazin E

Biol Sex Differ 7 (-) 5 [2016-01-12; online 2016-01-12]

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Simultaneous Multiplexed Measurement of RNA and Proteins in Single Cells.

Darmanis S, Gallant CJ, Marinescu VD, ..., Westermark B, Landegren U

Cell Reports 14 (2) 380-389 [2016-01-12; online 2015-12-31]

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Influence of pre-existing inflammation on the outcome of acute coronary syndrome: a cross-sectional study.

Odeberg J, Freitag M, Forssell H, ..., Råstam L, Lindblad U

BMJ Open 6 (1) e009968 [2016-01-12; online 2016-01-12]

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Genome-wide identification of Wig-1 mRNA targets by RIP-Seq analysis.

Bersani C, Huss M, Giacomello S, ..., Lui WO, Wiman KG

Oncotarget 7 (2) 1895-1911 [2016-01-12; online 2015-12-18]

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Confounding Effects of Metformin on the Human Gut Microbiome in Type 2 Diabetes.

Mardinoglu A, Boren J, Smith U

Cell Metab. 23 (1) 10-12 [2016-01-12; online 2016-01-16]

Adil Mardinoglu SciLifeLab Fellow

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Cancer-Specific Synthetic Lethality between ATR and CHK1 Kinase Activities.

Sanjiv K, Hagenkort A, Calderón-Montaño JM, ..., Altun M, Helleday T

Cell Reports 14 (2) 298-309 [2016-01-12; online 2015-12-31]

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BMP Sustains Embryonic Stem Cell Self-Renewal through Distinct Functions of Different Krüppel-like Factors.

Morikawa M, Koinuma D, Mizutani A, ..., Heldin CH, Miyazono K

Stem Cell Reports 6 (1) 64-73 [2016-01-12; online 2016-01-16]

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Knock-down of ZBED6 in insulin-producing cells promotes N-cadherin junctions between beta-cells and neural crest stem cells in vitro.

Wang X, Xie B, Qi Y, ..., Kozlova EN, Welsh N

Sci Rep 6 (-) 19006 [2016-01-11; online 2016-01-11]

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APPL proteins promote TGFβ-induced nuclear transport of the TGFβ type I receptor intracellular domain.

Song J, Mu Y, Li C, ..., Heldin CH, Landström M

Oncotarget 7 (1) 279-292 [2016-01-05; online 2015-11-20]

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Computer vision profiling of neurite outgrowth dynamics reveals spatiotemporal modularity of Rho GTPase signaling.

Fusco L, Lefort R, Smith K, ..., Fua P, Pertz O

J. Cell Biol. 212 (1) 91-111 [2016-01-04; online 2016-01-06]

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Case definitions in Swedish register data to identify systemic lupus erythematosus.

Arkema EV, Jönsen A, Rönnblom L, ..., Sjöwall C, Simard JF

BMJ Open 6 (1) e007769 [2016-01-04; online 2016-01-04]

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CRISPRz: a database of zebrafish validated sgRNAs.

Varshney GK, Zhang S, Pei W, ..., Sood R, Burgess SM

Nucleic Acids Res. 44 (D1) D822-D826 [2016-01-04; online 2015-10-04]

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Pivotal role of glycogen synthase kinase-3: A therapeutic target for Alzheimer's disease.

Maqbool M, Mobashir M, Hoda N

Eur J Med Chem 107 (-) 63-81 [2016-01-01; online 2015-10-21]

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Antigen Selection Shapes the T-cell Repertoire in Chronic Lymphocytic Leukemia.

Vardi A, Agathangelidis A, Stalika E, ..., Sutton LA, Stamatopoulos K

Clin. Cancer Res. 22 (1) 167-174 [2016-01-01; online 2015-09-02]

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hTERT promoter methylation in pituitary adenomas.

Köchling M, Ewelt C, Fürtjes G, ..., Stummer W, Brokinkel B

Brain Tumor Pathol 33 (1) 27-34 [2016-01-00; online 2015-09-21]

Affiliated researcher

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The regulation of function, growth and survival of GLP-1-producing L-cells.

Kuhre RE, Holst JJ, Kappe C

Clin. Sci. 130 (2) 79-91 [2016-01-00; online 2015-12-08]

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The rate of adaptive evolution in animal mitochondria.

James JE, Piganeau G, Eyre-Walker A

Mol. Ecol. 25 (1) 67-78 [2016-01-00; online 2015-12-17]

Jennifer James

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The WD40 Domain Protein MSI1 Functions in a Histone Deacetylase Complex to Fine-Tune Abscisic Acid Signaling.

Mehdi S, Derkacheva M, Ramström M, ..., Bergquist J, Hennig L

Plant Cell 28 (1) 42-54 [2016-01-00; online 2015-12-24]

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The Molecular Basis of Polyunsaturated Fatty Acid Interactions with the Shaker Voltage-Gated Potassium Channel.

Yazdi S, Stein M, Elinder F, Andersson M, Lindahl E

PLoS Comput Biol 12 (1) e1004704 [2016-01-00; online 2016-01-11]

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Targeting DNA repair, DNA metabolism and replication stress as anti-cancer strategies.

Puigvert JC, Sanjiv K, Helleday T

FEBS J. 283 (2) 232-245 [2016-01-00; online 2015-11-18]

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Super-resolution stimulated emission depletion imaging of slit diaphragm proteins in optically cleared kidney tissue.

Unnersjö-Jess D, Scott L, Blom H, Brismar H

Kidney Int. 89 (1) 243-247 [2016-01-00; online 2016-01-04]

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Structural genomic changes underlie alternative reproductive strategies in the ruff (Philomachus pugnax).

Lamichhaney S, Fan G, Widemo F, ..., Liu X, Andersson L

Nat. Genet. 48 (1) 84-88 [2016-01-00; online 2015-11-16]

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Protein Biomarkers for Insulin Resistance and Type 2 Diabetes Risk in Two Large Community Cohorts.

Nowak C, Sundström J, Gustafsson S, ..., Ingelsson E, Fall T

Diabetes 65 (1) 276-284 [2016-01-00; online 2015-09-29]

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Prediction impact curve is a new measure integrating intervention effects in the evaluation of risk models.

Campbell W, Ganna A, Ingelsson E, Janssens AC

J Clin Epidemiol 69 (-) 89-95 [2016-01-00; online 2015-06-25]

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Out of southern East Asia: the natural history of domestic dogs across the world.

Wang GD, Zhai W, Yang HC, ..., Savolainen P, Zhang YP

Cell Res. 26 (1) 21-33 [2016-01-00; online 2015-12-15]

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Non-invasive in vitro and in vivo monitoring of degradation of fluorescently labeled hyaluronan hydrogels for tissue engineering applications.

Zhang Y, Rossi F, Papa S, ..., Hilborn J, Ossipov DA

Acta Biomater 30 (-) 188-198 [2016-01-00; online 2015-11-24]

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Mutations in FLVCR2 associated with Fowler syndrome and survival beyond infancy.

Kvarnung M, Taylan F, Nilsson D, ..., Nordgren A, Syk Lundberg E

Clin. Genet. 89 (1) 99-103 [2016-01-00; online 2015-03-04]

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Large-scale non-targeted metabolomic profiling in three human population-based studies

Ganna A, Fall T, Salihovic S, ..., Pawitan Y, Ingelsson E

Metabolomics 12 (1) - [2016-01-00; online 2015-11-07]

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Increased lanosterol turnover: a metabolic burden for daunorubicin-resistant leukemia cells.

Stäubert C, Krakowsky R, Bhuiyan H, ..., Broom O, Nordström A

Med. Oncol. 33 (1) 6 [2016-01-00; online 2015-12-23]

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Genomic signature of successful colonization of Eurasia by the allopolyploid shepherd's purse (Capsella bursa-pastoris).

Cornille A, Salcedo A, Kryvokhyzha D, ..., Wright SI, Lascoux M

Mol. Ecol. 25 (2) 616-629 [2016-01-00; online 2016-01-20]

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Genetic heterogeneity in rhabdomyosarcoma revealed by SNP array analysis.

Walther C, Mayrhofer M, Nilsson J, ..., Gisselsson D, Mertens F

Genes Chromosomes Cancer 55 (1) 3-15 [2016-01-00; online 2015-10-20]

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F11 is associated with recurrent VTE in women. A prospective cohort study.

Bruzelius M, Ljungqvist M, Bottai M, ..., Lärfars G, Odeberg J

Thromb. Haemost. 115 (2) 406-414 [2016-01-00; online 2015-10-01]

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Exome and genome sequencing: a revolution for the discovery and diagnosis of monogenic disorders.

Stranneheim H, Wedell A

J. Intern. Med. 279 (1) 3-15 [2016-01-00; online 2015-08-07]

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Concentrations of antibiotics predicted to select for resistant bacteria: Proposed limits for environmental regulation.

Bengtsson-Palme J, Larsson DG

Environ Int 86 (-) 140-149 [2016-01-00; online 2015-11-17]

DDLS Fellow Johan Bengtsson-Palme

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Composition of human faecal microbiota in resistance to Campylobacter infection.

Kampmann C, Dicksved J, Engstrand L, Rautelin H

Clin. Microbiol. Infect. 22 (1) 61.e1-61.e8 [2016-01-00; online 2015-09-11]

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Cerebrospinal fluid kynurenines in multiple sclerosis; relation to disease course and neurocognitive symptoms.

Aeinehband S, Brenner P, Ståhl S, ..., Erhardt S, Piehl F

Brain Behav. Immun. 51 (-) 47-55 [2016-01-00; online 2015-07-17]

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A minimalistic microbial food web in an excavated deep subsurface clay rock.

Bagnoud A, de Bruijn I, Andersson AF, ..., Schwyn B, Bernier-Latmani R

FEMS Microbiol. Ecol. 92 (1) - [2016-01-00; online 2015-11-04]

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A critical role for ATF2 transcription factor in the regulation of E-selectin expression in response to non-endotoxin components of Neisseria meningitidis.

Jacobsen MC, Dusart PJ, Kotowicz K, ..., Klein NJ, Dixon GL

Cell. Microbiol. 18 (1) 66-79 [2016-01-00; online 2015-07-31]

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A comprehensive comparative review of sequence-based predictors of DNA- and RNA-binding residues.

Yan J, Friedrich S, Kurgan L

Brief. Bioinformatics 17 (1) 88-105 [2016-01-00; online 2015-05-01]

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Simultaneous quantification of imatinib and CGP74588 in human plasma by liquid chromatography-time of flight mass spectrometry (LC-TOF-MS)

Ubhayasekera SJKA, Aluthgedara W, Ek B, Bergquist J

Anal. Methods 8 (15) 3046-3054 [2016-00-00; online 2016-00-00]

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Organocatalyzed Mannich reactions on minocycline: Towards novel tetracycline antibiotics

CHIWUNZE TE, Azumah R, Ramtahal M, ..., Govender T, Naicker T

S.Afr.j.chem. 69 (-) - [2016-00-00; online 2016-00-00]

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Highly scalable production of uniformly-coated superparamagnetic nanoparticles for triggered drug release from alginate hydrogels

Teleki A, Haufe FL, Hirt AM, Pratsinis SE, Sotiriou GA

RSC Adv. 6 (26) 21503-21510 [2016-00-00; online 2016-00-00]

Alexandra Teleki SciLifeLab Fellow

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Fractal Dimension versus Process Complexity

Joosten JJ, Soler-Toscano F, Zenil H

Advances in Mathematical Physics 2016 (-) 1-21 [2016-00-00; online 2016-00-00]

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Formation of hierarchical bone-like apatites on silk microfiber templates via biomineralization

Xu Z, Shi L, Hu D, ..., Yang M, Zhu L

RSC Adv. 6 (80) 76426-76433 [2016-00-00; online 2016-00-00]

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Bridging Histology and Bioinformatics—Computational Analysis of Spatially Resolved Transcriptomics

Mignardi M, Ishaq O, Qian X, Wahlby C

Proc. IEEE - (-) 1-12 [2016-00-00; online 2016-00-00]

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Fast Zeta Transforms for Lattices with Few Irreducibles

Björklund A, Husfeldt T, Kaski P, ..., Nederlof J, Parviainen P

TALG ACM Trans. Algorithms 12 (1) 1-19 [2015-12-31; online 2015-12-31]

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Systematic hierarchical coarse-graining with the inverse Monte Carlo method.

Lyubartsev AP, Naômé A, Vercauteren DP, Laaksonen A

J Chem Phys 143 (24) 243120 [2015-12-28; online 2016-01-03]

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Effect of tunable dot charging on photoresponse spectra of GaAs p-i-n diode with InAs quantum dots

Shang X, Yu Y, Li M, ..., Fu Y, Niu Z

Journal of Applied Physics 118 (24) 244503 [2015-12-28; online 2015-12-28]

Affiliated researcher

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Fragment-Based Discovery of Subtype-Selective Adenosine Receptor Ligands from Homology Models.

Ranganathan A, Stoddart LA, Hill SJ, Carlsson J

J Med Chem 58 (24) 9578-9590 [2015-12-24; online 2015-12-08]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Evaluation of Intracellular Signaling Downstream Chimeric Antigen Receptors.

Karlsson H, Svensson E, Gigg C, ..., Dotti G, Loskog A

PLoS ONE 10 (12) e0144787 [2015-12-23; online 2015-12-23]

Affiliated researcher

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p21-activated kinase group II small compound inhibitor GNE-2861 perturbs estrogen receptor alpha signaling and restores tamoxifen-sensitivity in breast cancer cells.

Zhuang T, Zhu J, Li Z, ..., Dahlman-Wright K, Strömblad S

Oncotarget 6 (41) 43853-43868 [2015-12-22; online 2015-11-12]

Affiliated researcher

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The Urinary Bladder Transcriptome and Proteome Defined by Transcriptomics and Antibody-Based Profiling.

Habuka M, Fagerberg L, Hallström BM, ..., Yamamoto T, Uhlen M

PLoS ONE 10 (12) e0145301 [2015-12-22; online 2015-12-22]

Affiliated researcher

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Transcriptome analysis reveals mucin 4 to be highly associated with periodontitis and identifies pleckstrin as a link to systemic diseases.

Lundmark A, Davanian H, Båge T, ..., Lundeberg J, Yucel-Lindberg T

Sci Rep 5 (-) 18475 [2015-12-21; online 2015-12-21]

Affiliated researcher

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Genome-wide genetic homogeneity between sexes and populations for human height and body mass index.

Yang J, Bakshi A, Zhu Z, ..., Ingelsson E, Visscher PM

Hum. Mol. Genet. 24 (25) 7445-7449 [2015-12-20; online 2015-10-22]

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Naturally Occurring Adrenocortical Insufficiency--An Epidemiological Study Based on a Swedish-Insured Dog Population of 525,028 Dogs.

Hanson JM, Tengvall K, Bonnett BN, Hedhammar Å

J. Vet. Intern. Med. 30 (1) 76-84 [2015-12-18; online 2015-12-18]

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Exploring water as building bricks in enzyme engineering.

Hendil-Forssell P, Martinelle M, Syrén PO

Chem. Commun. (Camb.) 51 (97) 17221-17224 [2015-12-18; online 2015-10-02]

Affiliated researcher

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Cancer Metabolism: A Modeling Perspective.

Ghaffari P, Mardinoglu A, Nielsen J

Front. Physiol. 6 (-) 382 [2015-12-16; online 2015-12-16]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Oligonucleotide gap-fill ligation for mutation detection and sequencing in situ.

Mignardi M, Mezger A, Qian X, ..., Larsson C, Nilsson M

Nucleic Acids Res. 43 (22) e151 [2015-12-15; online 2015-08-03]

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Litomosoides sigmodontis: a jird urine metabolome study.

Globisch D, Specht S, Pfarr KM, ..., Hoerauf A, Janda KD

Bioorg. Med. Chem. Lett. 25 (24) 5804-5807 [2015-12-15; online 2015-10-23]

Daniel Globisch SciLifeLab Fellow

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Metagenome-assembled genomes uncover a global brackish microbiome.

Hugerth LW, Larsson J, Alneberg J, ..., Pinhassi J, Andersson AF

Genome Biol. 16 (-) 279 [2015-12-14; online 2015-12-14]

Affiliated researcher DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Application of Gene Expression Trajectories Initiated from ErbB Receptor Activation Highlights the Dynamics of Divergent Promoter Usage.

Carbajo D, Magi S, Itoh M, ..., Okada-Hatakeyama M, Mar JC

PLoS ONE 10 (12) e0144176 [2015-12-14; online 2015-12-14]

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Metagenome-Based Metabolic Reconstruction Reveals the Ecophysiological Function of Epsilonproteobacteria in a Hydrocarbon-Contaminated Sulfidic Aquifer.

Keller AH, Schleinitz KM, Starke R, ..., Vogt C, Kleinsteuber S

Front Microbiol 6 (-) 1396 [2015-12-10; online 2015-12-10]

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Hydrogen production by the engineered cyanobacterial strain Nostoc PCC 7120 ΔhupW examined in a flat panel photobioreactor system.

Nyberg M, Heidorn T, Lindblad P

J. Biotechnol. 215 (-) 35-43 [2015-12-10; online 2015-08-29]

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High levels of WNT-5A in human glioma correlate with increased presence of tumor-associated microglia/monocytes.

Dijksterhuis JP, Arthofer E, Marinescu VD, ..., Mulder J, Schulte G

Exp. Cell Res. 339 (2) 280-288 [2015-12-10; online 2015-10-25]

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Pleiotrophin promotes vascular abnormalization in gliomas and correlates with poor survival in patients with astrocytomas.

Zhang L, Kundu S, Feenstra T, ..., Dieterich LC, Dimberg A

Sci Signal 8 (406) ra125 [2015-12-08; online 2015-12-08]

Affiliated researcher

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Effect of voluntary alcohol consumption on Maoa expression in the mesocorticolimbic brain of adult male rats previously exposed to prolonged maternal separation.

Bendre M, Comasco E, Nylander I, Nilsson KW

Transl Psychiatry 5 (12) e690 [2015-12-08; online 2015-12-08]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Tumor-Induced Local and Systemic Impact on Blood Vessel Function.

Cedervall J, Dimberg A, Olsson AK

Mediators Inflamm. 2015 (-) 418290 [2015-12-07; online 2015-12-07]

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Bioinformatics Mining and Modeling Methods for the Identification of Disease Mechanisms in Neurodegenerative Disorders.

Hofmann-Apitius M, Ball G, Gebel S, ..., Tegnér J, Canard L

Int J Mol Sci 16 (12) 29179-29206 [2015-12-07; online 2015-12-07]

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Sixteen new lung function signals identified through 1000 Genomes Project reference panel imputation.

Soler Artigas M, Wain LV, Miller S, ..., Hall IP, Tobin MD

Nat Commun 6 (-) 8658 [2015-12-04; online 2015-12-04]

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Multipotent versus differentiated cell fate selection in the developing Drosophila airways.

Matsuda R, Hosono C, Samakovlis C, Saigo K

Elife 4 (-) - [2015-12-02; online 2015-12-02]

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cgmisc: enhanced genome-wide association analyses and visualization.

Kierczak M, Jabłońska J, Forsberg SK, ..., Carlborg Ö, Lindblad-Toh K

Bioinformatics 31 (23) 3830-3831 [2015-12-01; online 2015-08-06]

Affiliated researcher

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Stratification of Hepatocellular Carcinoma Patients Based on Acetate Utilization.

Björnson E, Mukhopadhyay B, Asplund A, ..., Nielsen J, Mardinoglu A

Cell Reports 13 (9) 2014-2026 [2015-12-01; online 2015-11-19]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Rapid and Efficient Conversion of (11) CO2 to (11) CO through Silacarboxylic Acids: Applications in Pd-Mediated Carbonylations.

Nordeman P, Friis SD, Andersen TL, ..., Skrydstrup T, Antoni G

Chemistry 21 (49) 17601-17604 [2015-12-01; online 2015-10-23]

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Protein profiling reveals consequences of lifestyle choices on predicted biological aging.

Enroth S, Enroth SB, Johansson Å, Gyllensten U

Sci Rep 5 (-) 17282 [2015-12-01; online 2015-12-01]

Affiliated researcher

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Multi-level omics analysis in a murine model of dystrophin loss and therapeutic restoration.

Roberts TC, Johansson HJ, McClorey G, ..., El Andaloussi S, Wood MJ

Hum. Mol. Genet. 24 (23) 6756-6768 [2015-12-01; online 2015-09-18]

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PubMed DOI Crossref

Highly Sensitive FRET-FCS Detects Amyloid β-Peptide Oligomers in Solution at Physiological Concentrations.

Wennmalm S, Chmyrov V, Widengren J, Tjernberg L

Anal. Chem. 87 (23) 11700-11705 [2015-12-01; online 2015-11-10]

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Gene-based meta-analysis of genome-wide association studies implicates new loci involved in obesity.

Hägg S, Ganna A, Van Der Laan SW, ..., Pawitan Y, Ingelsson E

Hum. Mol. Genet. 24 (23) 6849-6860 [2015-12-01; online 2015-09-16]

Affiliated researcher

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Cyclophilin D, a target for counteracting skeletal muscle dysfunction in mitochondrial myopathy.

Gineste C, Hernandez A, Ivarsson N, ..., Wredenberg A, Westerblad H

Hum. Mol. Genet. 24 (23) 6580-6587 [2015-12-01; online 2015-09-14]

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ARResT/AssignSubsets: a novel application for robust subclassification of chronic lymphocytic leukemia based on B cell receptor IG stereotypy.

Bystry V, Agathangelidis A, Bikos V, ..., Darzentas N, European Research Initiative on CLL

Bioinformatics 31 (23) 3844-3846 [2015-12-01; online 2015-08-06]

Affiliated researcher

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A genome-wide IR-induced RAD51 foci RNAi screen identifies CDC73 involved in chromatin remodeling for DNA repair.

Herr P, Lundin C, Evers B, ..., Sonnhammer E, Helleday T

Cell Discov 1 (-) 15034 [2015-12-01; online 2015-12-01]

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PubMed DOI Crossref

The body mass index (BMI) is significantly correlated with levels of cytokines and chemokines in cerebrospinal fluid.

Larsson A, Carlsson L, Lind AL, ..., Kamali-Moghaddam M, Thulin M

Cytokine 76 (2) 514-518 [2015-12-00; online 2015-07-15]

Affiliated researcher

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The European technical report on aquatic effect-based monitoring tools under the water framework directive

Wernersson AS, Carere M, Maggi C, ..., Kammann U, Kase R

Environ Sci Eur 27 (1) - [2015-12-00; online 2015-03-11]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

The Constrained Maximal Expression Level Owing to Haploidy Shapes Gene Content on the Mammalian X Chromosome.

Hurst LD, Ghanbarian AT, Forrest AR, FANTOM consortium , Huminiecki L

PLoS Biol. 13 (12) e1002315 [2015-12-00; online 2015-12-18]

Affiliated researcher

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The Cannabinoid Receptor-1 Is an Imaging Biomarker of Brown Adipose Tissue.

Eriksson O, Mikkola K, Espes D, ..., Solin O, Nuutila P

Journal of nuclear medicine : official publication, Society of Nuclear Medicine 56 (12) 1937-1941 [2015-12-00; online 2015-09-10]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Tamoxifen Inhibits TGF-β-Mediated Activation of Myofibroblasts by Blocking Non-Smad Signaling Through ERK1/2.

Carthy JM, Sundqvist A, Heldin A, ..., Heldin CH, Moustakas A

J. Cell. Physiol. 230 (12) 3084-3092 [2015-12-00; online 2015-06-23]

Affiliated researcher

PubMed DOI Crossref

Susceptibility to infections, without concomitant hyper-IgE, reported in 1976, is caused by hypomorphic mutation in the phosphoglucomutase 3 (PGM3) gene.

Lundin KE, Hamasy A, Backe PH, ..., Stenmark S, Smith CI

Clin. Immunol. 161 (2) 366-372 [2015-12-00; online 2015-10-19]

Affiliated researcher

PubMed DOI Crossref

Psychiatric symptoms in adolescents: FKBP5 genotype--early life adversity interaction effects.

Comasco E, Gustafsson PA, Sydsjö G, ..., Aho N, Svedin CG

Eur Child Adolesc Psychiatry 24 (12) 1473-1483 [2015-12-00; online 2015-09-30]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Phenotypic expansion of visceral myopathy associated with ACTG2 tandem base substitution.

Klar J, Raykova D, Gustafson E, ..., Wanders A, Dahl N

Eur. J. Hum. Genet. 23 (12) 1679-1683 [2015-12-00; online 2015-03-18]

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Molecular Cloning and Biochemical Characterization of the Iron Superoxide Dismutase from the Cyanobacterium Nostoc punctiforme ATCC 29133 and Its Response to Methyl Viologen-Induced Oxidative Stress.

Moirangthem LD, Ibrahim KS, Vanlalsangi R, ..., Lindblad P, Bhattacharya J

Mol. Biotechnol. 57 (11-12) 1003-1009 [2015-12-00; online 2015-10-07]

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Metagenomic insights into strategies of aerobic and anaerobic carbon and nitrogen transformation in boreal lakes

Peura S, Sinclair L, Bertilsson S, Eiler A

Sci Rep 5 (1) - [2015-12-00; online 2015-07-10]

Affiliated researcher Sari Peura SciLifeLab Fellow

DOI Crossref

Magnetic nanobeads present during enzymatic amplification and labeling for a simplified DNA detection protocol based on AC susceptometry

Bejhed RS, Strømme M, Svedlindh P, Ahlford A, Strömberg M

AIP Advances 5 (12) 127139 [2015-12-00; online 2015-12-00]

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Liquid chromatography-tandem mass spectrometry (LC-MS/MS) for analysis of endogenous steroids in the luteal phase and early pregnancy in dogs: a pilot study.

Holst BS, Kushnir MM, Bergquist J

Vet Clin Pathol 44 (4) 552-558 [2015-12-00; online 2015-11-23]

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Hypercompetition in biomedical research evaluation and its impact on young scientist careers.

Kamerlin SC

Int. Microbiol. 18 (4) 253-261 [2015-12-00; online 2016-09-10]

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Hormone Replacement Therapy Associated White Blood Cell DNA Methylation and Gene Expression are Associated With Within-Pair Differences of Body Adiposity and Bone Mass.

Bahl A, Pöllänen E, Ismail K, ..., Kovanen V, Ollikainen M

Twin Res Hum Genet 18 (6) 647-661 [2015-12-00; online 2015-12-19]

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Gout and its comorbidities in the total population of Stockholm.

Wändell P, Carlsson AC, Ljunggren G

Prev Med 81 (-) 387-391 [2015-12-00; online 2015-10-21]

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Genetic fine mapping and genomic annotation defines causal mechanisms at type 2 diabetes susceptibility loci.

Gaulton KJ, Ferreira T, Lee Y, ..., Morris AP, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium

Nat. Genet. 47 (12) 1415-1425 [2015-12-00; online 2015-11-09]

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Genetic association analyses implicate aberrant regulation of innate and adaptive immunity genes in the pathogenesis of systemic lupus erythematosus.

Bentham J, Morris DL, Graham DSC, ..., Alarcón-Riquelme ME, Vyse TJ

Nat. Genet. 47 (12) 1457-1464 [2015-12-00; online 2015-10-26]

Affiliated researcher

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Development of autoantibodies against muscle-specific FHL1 in severe inflammatory myopathies.

Albrecht I, Wick C, Hallgren Å, ..., Kämpe O, Lundberg IE

J. Clin. Invest. 125 (12) 4612-4624 [2015-12-00; online 2015-11-09]

Affiliated researcher

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Daily self-sampling for high-risk human papillomavirus (HR-HPV) testing.

Sanner K, Wikström I, Gustavsson I, ..., Gyllensten U, Olovsson M

J. Clin. Virol. 73 (-) 1-7 [2015-12-00; online 2015-10-08]

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Classification of Amino Acid Substitutions in Mismatch Repair Proteins Using PON-MMR2.

Niroula A, Vihinen M

Hum. Mutat. 36 (12) 1128-1134 [2015-12-00; online 2015-09-22]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Characterization of the honeybee AmNaV1 channel and tools to assess the toxicity of insecticides

Gosselin-Badaroudine P, Moreau A, Delemotte L, ..., Klein ML, Chahine M

Sci Rep 5 (1) - [2015-12-00; online 2015-07-23]

Lucie Delemotte SciLifeLab Fellow

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Bacterial diversity along a 2600 km river continuum.

Savio D, Sinclair L, Ijaz UZ, ..., Farnleitner AH, Eiler A

Environ. Microbiol. 17 (12) 4994-5007 [2015-12-00; online 2015-06-11]

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Alteration by p11 of mGluR5 localization regulates depression-like behaviors.

Lee KW, Westin L, Kim J, ..., Kim Y, Greengard P

Mol. Psychiatry 20 (12) 1546-1556 [2015-12-00; online 2015-09-15]

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De novo assembly of Dekkera bruxellensis: a multi technology approach using short and long-read sequencing and optical mapping.

Olsen RA, Bunikis I, Tiukova I, ..., Käller M, Vezzi F

Gigascience 4 (-) 56 [2015-11-26; online 2015-11-26]

Affiliated researcher

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Adaptation to acetaminophen exposure elicits major changes in expression and distribution of the hepatic proteome.

Eakins R, Walsh J, Randle L, ..., Goldring CE, Park BK

Sci Rep 5 (-) 16423 [2015-11-26; online 2015-11-26]

Affiliated researcher

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Single-cell screening of photosynthetic growth and lactate production by cyanobacteria.

Hammar P, Angermayr SA, Sjostrom SL, ..., Hudson EP, Joensson HN

Biotechnol Biofuels 8 (1) 193 [2015-11-25; online 2015-11-25]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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Machine Learning Based Classification of Microsatellite Variation: An Effective Approach for Phylogeographic Characterization of Olive Populations.

Torkzaban B, Kayvanjoo AH, Ardalan A, ..., Ebrahimi M, Hosseini-Mazinani M

PLoS ONE 10 (11) e0143465 [2015-11-24; online 2015-11-24]

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Genome-Wide Association Study Identifies That the ABO Blood Group System Influences Interleukin-10 Levels and the Risk of Clinical Events in Patients with Acute Coronary Syndrome.

Johansson Å, Alfredsson J, Eriksson N, Wallentin L, Siegbahn A

PLoS ONE 10 (11) e0142518 [2015-11-24; online 2015-11-24]

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Amelanism in the corn snake is associated with the insertion of an LTR-retrotransposon in the OCA2 gene.

Saenko SV, Lamichhaney S, Martinez Barrio A, ..., Andersson L, Milinkovitch MC

Sci Rep 5 (-) 17118 [2015-11-24; online 2015-11-24]

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Functional Characterization of Germline Mutations in PDGFB and PDGFRB in Primary Familial Brain Calcification.

Vanlandewijck M, Lebouvier T, Andaloussi Mäe M, ..., Keller A, Betsholtz C

PLoS ONE 10 (11) e0143407 [2015-11-23; online 2015-11-23]

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Kinetic Studies to Elucidate Impaired Metabolism of Triglyceride-rich Lipoproteins in Humans.

Adiels M, Mardinoglu A, Taskinen MR, Borén J

Front. Physiol. 6 (-) 342 [2015-11-20; online 2015-11-20]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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RNA sequencing uncovers antisense RNAs and novel small RNAs in Streptococcus pyogenes.

Le Rhun A, Beer YY, Reimegård J, Chylinski K, Charpentier E

RNA Biol 13 (2) 177-195 [2015-11-19; online 2015-11-19]

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Jagged 1 Rescues the Duchenne Muscular Dystrophy Phenotype.

Vieira NM, Elvers I, Alexander MS, ..., Kunkel LM, Zatz M

Cell 163 (5) 1204-1213 [2015-11-19; online 2015-11-12]

Affiliated researcher

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Co-occurrence of resistance genes to antibiotics, biocides and metals reveals novel insights into their co-selection potential.

Pal C, Bengtsson-Palme J, Kristiansson E, Larsson DG

BMC Genomics 16 (-) 964 [2015-11-17; online 2015-11-17]

DDLS Fellow Johan Bengtsson-Palme

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Single cell analysis of cancer cells using an improved RT-MLPA method has potential for cancer diagnosis and monitoring.

Kvastad L, Werne Solnestam B, Johansson E, ..., Latta D, Lundeberg J

Sci Rep 5 (-) 16519 [2015-11-12; online 2015-11-12]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

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NPM1 histone chaperone is upregulated in glioblastoma to promote cell survival and maintain nucleolar shape.

Holmberg Olausson K, Elsir T, Moazemi Goudarzi K, Nistér M, Lindström MS

Sci Rep 5 (-) 16495 [2015-11-12; online 2015-11-12]

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The 2015 super-resolution microscopy roadmap

Hell SW, Sahl SJ, Bates M, ..., Diaspro A, Cordes T

J. Phys. D: Appl. Phys. 48 (44) 443001 [2015-11-11; online 2015-10-15]

Ilaria Testa SciLifeLab Fellow

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Immunocapture strategies in translational proteomics.

Fredolini C, Byström S, Pin E, ..., Nilsson P, Schwenk JM

Expert Rev Proteomics 13 (1) 83-98 [2015-11-11; online 2015-11-11]

Affiliated researcher

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A validated gene regulatory network and GWAS identifies early regulators of T cell-associated diseases.

Gustafsson M, Gawel DR, Alfredsson L, ..., Nestor CE, Benson M

Sci Transl Med 7 (313) 313ra178 [2015-11-11; online 2015-11-13]

Antonio Lentini DDLS Fellow

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Molecular signatures of plastic phenotypes in two eusocial insect species with simple societies.

Patalano S, Vlasova A, Wyatt C, ..., Reik W, Sumner S

Proc. Natl. Acad. Sci. U.S.A. 112 (45) 13970-13975 [2015-11-10; online 2015-10-19]

Affiliated researcher

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Generalized Born and Explicit Solvent Models for Free Energy Calculations in Organic Solvents: Cyclodextrin Dimerization.

Zhang H, Tan T, van der Spoel D

J Chem Theory Comput 11 (11) 5103-5113 [2015-11-10; online 2015-10-08]

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Flow-through cross-polarized imaging as a new tool to overcome the analytical sensitivity challenges of a low-dose crystalline compound in a lipid matrix.

Adler C, Schönenberger M, Teleki A, Leuenberger B, Kuentz M

J Pharm Biomed Anal 115 (-) 20-30 [2015-11-10; online 2015-06-24]

Alexandra Teleki SciLifeLab Fellow

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Acute MUS81 depletion leads to replication fork slowing and a constitutive DNA damage response.

Xing M, Wang X, Palmai-Pallag T, ..., Hickson ID, Ying S

Oncotarget 6 (35) 37638-37646 [2015-11-10; online 2015-09-29]

Affiliated researcher

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Effect of genetic and environmental factors on protein biomarkers for common non-communicable disease and use of personally normalized plasma protein profiles (PNPPP).

Enroth S, Bosdotter Enroth S, Johansson Å, Gyllensten U

Biomarkers 20 (6-7) 355-364 [2015-11-09; online 2015-11-09]

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Mechanisms of fluorescence decays of colloidal CdSe-CdS/ZnS quantum dots unraveled by time-resolved fluorescence measurement.

Xu H, Chmyrov V, Widengren J, Brismar H, Fu Y

Phys Chem Chem Phys 17 (41) 27588-27595 [2015-11-07; online 2015-10-02]

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An 8 minute colorimetric paper-based reverse phase vertical flow serum microarray for screening of hyper IgE syndrome.

Reuterswärd P, Gantelius J, Andersson Svahn H

Analyst 140 (21) 7327-7334 [2015-11-07; online 2015-09-15]

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Immunostimulatory Gene Therapy Using Oncolytic Viruses as Vehicles.

Loskog A

Viruses 7 (11) 5780-5791 [2015-11-06; online 2015-11-06]

Affiliated researcher

PubMed DOI Crossref

Development of Phage-Based Antibody Fragment Reagents for Affinity Enrichment of Bacterial Immunoglobulin G Binding Proteins.

Säll A, Sjöholm K, Waldemarson S, ..., Persson H, Malmström J

J. Proteome Res. 14 (11) 4704-4713 [2015-11-06; online 2015-10-27]

Affiliated researcher

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Intra-mitochondrial Methylation Deficiency Due to Mutations in SLC25A26.

Kishita Y, Pajak A, Bolar NA, ..., Okazaki Y, Wedell A

Am. J. Hum. Genet. 97 (5) 761-768 [2015-11-05; online 2015-10-29]

Affiliated researcher

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Castration radiosensitizes prostate cancer tissue by impairing DNA double-strand break repair.

Tarish FL, Schultz N, Tanoglidi A, ..., Granfors T, Helleday T

Sci Transl Med 7 (312) 312re11 [2015-11-04; online 2015-11-06]

Affiliated researcher

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VEGF-B-Neuropilin-1 signaling is spatiotemporally indispensable for vascular and neuronal development in zebrafish.

Jensen LD, Nakamura M, Bräutigam L, ..., Samani NJ, Cao Y

Proc. Natl. Acad. Sci. U.S.A. 112 (44) E5944-E5953 [2015-11-03; online 2015-10-19]

Affiliated researcher

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NSMCE2 suppresses cancer and aging in mice independently of its SUMO ligase activity.

Jacome A, Gutierrez-Martinez P, Schiavoni F, ..., Blasco MA, Fernandez-Capetillo O

EMBO J. 34 (21) 2604-2619 [2015-11-03; online 2015-10-06]

Affiliated researcher

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Elevated expression of the C-type lectin CD93 in the glioblastoma vasculature regulates cytoskeletal rearrangements that enhance vessel function and reduce host survival.

Langenkamp E, Zhang L, Lugano R, ..., Smits A, Dimberg A

Cancer Res. 75 (21) 4504-4516 [2015-11-01; online 2015-09-11]

Affiliated researcher

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Toward the Replacement of Animal Experiments through the Bioinformatics-driven Analysis of 'Omics' Data from Human Cell Cultures.

Grafström RC, Nymark P, Hongisto V, ..., Kaski S, Kohonen P

Altern Lab Anim 43 (5) 325-332 [2015-11-00; online 2015-11-10]

Affiliated researcher

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Tissue factor/factor VIIa signalling promotes cytokine-induced beta cell death and impairs glucose-stimulated insulin secretion from human pancreatic islets.

Edén D, Siegbahn A, Mokhtari D

Diabetologia 58 (11) 2563-2572 [2015-11-00; online 2015-08-14]

Affiliated researcher

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The ketogenic diet compensates for AGC1 deficiency and improves myelination.

Dahlin M, Martin DA, Hedlund Z, ..., von Döbeln U, Wedell A

Epilepsia 56 (11) e176-e181 [2015-11-00; online 2015-09-24]

Affiliated researcher

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The Human Endometrium-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling.

Zieba A, Sjöstedt E, Olovsson M, ..., Uhlen M, Ponten F

OMICS 19 (11) 659-668 [2015-11-00; online 2015-10-21]

Affiliated researcher

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Stage-specific assembly events of the 6-MDa small-subunit processome initiate eukaryotic ribosome biogenesis.

Chaker-Margot M, Hunziker M, Barandun J, Dill BD, Klinge S

Nat. Struct. Mol. Biol. 22 (11) 920-923 [2015-11-00; online 2015-10-19]

Jonas Barandun SciLifeLab Fellow

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Slow degradation in phagocytic astrocytes can be enhanced by lysosomal acidification.

Lööv C, Mitchell CH, Simonsson M, Erlandsson A

Glia 63 (11) 1997-2009 [2015-11-00; online 2015-06-12]

Affiliated researcher

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Single-cell genomics of a rare environmental alphaproteobacterium provides unique insights into Rickettsiaceae evolution.

Martijn J, Schulz F, Zaremba-Niedzwiedzka K, ..., Guy L, Ettema TJ

ISME J 9 (11) 2373-2385 [2015-11-00; online 2015-04-07]

Affiliated researcher

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Single-Molecule Sequencing Reveals Estrogen-Regulated Clinically Relevant lncRNAs in Breast Cancer.

Jonsson P, Coarfa C, Mesmar F, ..., Gunaratne PH, Williams C

Mol. Endocrinol. 29 (11) 1634-1645 [2015-11-00; online 2015-10-01]

Affiliated researcher

PubMed DOI Crossref

Risks and benefits of sex-mismatched hematopoietic cell transplantation differ according to conditioning strategy.

Nakasone H, Remberger M, Tian L, ..., Miklos DB, Meyer E

Haematologica 100 (11) 1477-1485 [2015-11-00; online 2015-08-06]

Affiliated researcher

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Rescue of primary ubiquinone deficiency due to a novel COQ7 defect using 2,4-dihydroxybensoic acid.

Freyer C, Stranneheim H, Naess K, ..., Wredenberg A, Wedell A

J. Med. Genet. 52 (11) 779-783 [2015-11-00; online 2015-06-17]

Affiliated researcher

PubMed DOI Crossref

Proteomic Profiling of Detergent Resistant Membranes (Lipid Rafts) of Prostasomes.

Dubois L, Ronquist KK, Ek B, Ronquist G, Larsson A

Mol. Cell Proteomics 14 (11) 3015-3022 [2015-11-00; online 2015-08-13]

Affiliated researcher

PubMed DOI Crossref

Population genetic differentiation of height and body mass index across Europe.

Robinson MR, Hemani G, Medina-Gomez C, ..., Yang J, Visscher PM

Nat. Genet. 47 (11) 1357-1362 [2015-11-00; online 2015-09-14]

Affiliated researcher

PubMed DOI Crossref

Overexpression of functional human oxidosqualene cyclase in Escherichia coli.

Kürten C, Uhlén M, Syrén PO

Protein Expr. Purif. 115 (-) 46-53 [2015-11-00; online 2015-05-08]

Affiliated researcher

PubMed DOI Crossref

Mutation in CEP63 co-segregating with developmental dyslexia in a Swedish family.

Einarsdottir E, Svensson I, Darki F, ..., Kere J, Matsson H

Hum. Genet. 134 (11-12) 1239-1248 [2015-11-00; online 2015-09-23]

Affiliated researcher

PubMed DOI Crossref

METAXA2: improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data.

Bengtsson-Palme J, Hartmann M, Eriksson KM, ..., Larsson DG, Nilsson RH

Mol Ecol Resour 15 (6) 1403-1414 [2015-11-00; online 2015-03-23]

DDLS Fellow Johan Bengtsson-Palme

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Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers.

Burri R, Nater A, Kawakami T, ..., Török J, Ellegren H

Genome Res. 25 (11) 1656-1665 [2015-11-00; online 2015-09-09]

Affiliated researcher

PubMed DOI Crossref

Larger aggregates of mutant seipin in Celia's Encephalopathy, a new protein misfolding neurodegenerative disease.

Ruiz-Riquelme A, Sánchez-Iglesias S, Rábano A, ..., Araújo-Vilar D, Requena JR

Neurobiol. Dis. 83 (-) 44-53 [2015-11-00; online 2015-08-15]

Affiliated researcher

PubMed DOI Crossref

Integrating Sequence Evolution into Probabilistic Orthology Analysis.

Ullah I, Sjöstrand J, Andersson P, Sennblad B, Lagergren J

Syst. Biol. 64 (6) 969-982 [2015-11-00; online 2015-06-30]

Affiliated researcher

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In situ forming interpenetrating hydrogels of hyaluronic acid hybridized with iron oxide nanoparticles.

Kheirabadi M, Shi L, Bagheri R, ..., Hilborn J, Ossipov DA

Biomater Sci 3 (11) 1466-1474 [2015-11-00; online 2015-08-08]

Affiliated researcher

PubMed DOI Crossref

Impact of sludge deposition on biodiversity.

Manzetti S, van der Spoel D

Ecotoxicology 24 (9) 1799-1814 [2015-11-00; online 2015-08-30]

Affiliated researcher

PubMed DOI Crossref

Histidine-domain-containing protein tyrosine phosphatase regulates platelet-derived growth factor receptor intracellular sorting and degradation.

Ma H, Wardega P, Mazaud D, ..., Lennartsson J, Heldin CH

Cell. Signal. 27 (11) 2209-2219 [2015-11-00; online 2015-07-30]

Affiliated researcher

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HaloPlex Targeted Resequencing for Mutation Detection in Clinical Formalin-Fixed, Paraffin-Embedded Tumor Samples.

Moens LN, Falk-Sörqvist E, Ljungström V, ..., Nilsson M, Botling J

J Mol Diagn 17 (6) 729-739 [2015-11-00; online 2015-09-03]

Affiliated researcher

PubMed DOI Crossref

Genome-Wide Association Study of Golden Retrievers Identifies Germ-Line Risk Factors Predisposing to Mast Cell Tumours.

Arendt ML, Melin M, Tonomura N, ..., Starkey M, Lindblad-Toh K

PLoS Genet 11 (11) e1005647 [2015-11-00; online 2015-11-20]

Affiliated researcher

PubMed DOI Crossref

Functional characterization of zebrafish cytochrome P450 1 family proteins expressed in yeast.

Stegeman JJ, Behrendt L, Woodin BR, ..., Goldstone JV, Urban P

Biochim. Biophys. Acta 1850 (11) 2340-2352 [2015-11-00; online 2015-07-29]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Exome sequencing of lymphomas from three dog breeds reveals somatic mutation patterns reflecting genetic background.

Elvers I, Turner-Maier J, Swofford R, ..., Lindblad-Toh K, Alföldi J

Genome Res. 25 (11) 1634-1645 [2015-11-00; online 2015-09-16]

Affiliated researcher

DOI Crossref

Electric vehicle battery technologies: From present state to future systems

Manzetti S, Mariasiu F

Renewable and Sustainable Energy Reviews 51 (-) 1004-1012 [2015-11-00; online 2015-11-00]

Affiliated researcher

PubMed DOI Crossref

Early Exposure to Dogs and Farm Animals and the Risk of Childhood Asthma.

Fall T, Lundholm C, Örtqvist AK, ..., Ingelsson E, Almqvist C

JAMA Pediatr 169 (11) e153219 [2015-11-00; online 2015-11-02]

Affiliated researcher

PubMed DOI Crossref

Concurrent DNA Copy-Number Alterations and Mutations in Genes Related to Maintenance of Genome Stability in Uninvolved Mammary Glandular Tissue from Breast Cancer Patients.

Ronowicz A, Janaszak-Jasiecka A, Skokowski J, ..., Dumanski JP, Piotrowski A

Hum. Mutat. 36 (11) 1088-1099 [2015-11-00; online 2015-08-14]

Affiliated researcher

PubMed DOI Crossref

Assessing the consistency of public human tissue RNA-seq data sets.

Danielsson F, James T, Gomez-Cabrero D, Huss M

Brief. Bioinformatics 16 (6) 941-949 [2015-11-00; online 2015-03-30]

Affiliated researcher

PubMed DOI Crossref

Aberrant splicing of genes involved in haemoglobin synthesis and impaired terminal erythroid maturation in SF3B1 mutated refractory anaemia with ring sideroblasts.

Conte S, Katayama S, Vesterlund L, ..., Kere J, Hellström-Lindberg E

Br. J. Haematol. 171 (4) 478-490 [2015-11-00; online 2015-08-10]

Affiliated researcher

PubMed DOI Crossref

A study of genetic polymorphisms in mitochondrial DNA hypervariable regions I and II of the five major ethnic groups and Vedda population in Sri Lanka.

Ranasinghe R, Tennekoon KH, Karunanayake EH, Lembring M, Allen M

Leg Med (Tokyo) 17 (6) 539-546 [2015-11-00; online 2015-05-27]

Affiliated researcher

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Metagenomic sequencing of marine periphyton: taxonomic and functional insights into biofilm communities.

Sanli K, Bengtsson-Palme J, Nilsson RH, ..., Blanck H, Eriksson KM

Front Microbiol 6 (-) 1192 [2015-10-30; online 2015-10-30]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Identification of proteins highly expressed in uterine fluid from mice with hydrometra.

Antonson P, Nalvarte I, Varshney M, ..., Gustafsson JÅ, Dahlman-Wright K

Biochem. Biophys. Res. Commun. 466 (4) 650-655 [2015-10-30; online 2015-09-21]

Affiliated researcher

PubMed DOI Crossref

CytoSpectre: a tool for spectral analysis of oriented structures on cellular and subcellular levels.

Kartasalo K, Pölönen R, Ojala M, ..., Aalto-Setälä K, Kallio P

BMC Bioinformatics 16 (-) 344 [2015-10-26; online 2015-10-26]

DDLS Fellow Kimmo Kartasalo

PubMed DOI Crossref

Crosstalk between Hippo and TGFβ: Subcellular Localization of YAP/TAZ/Smad Complexes.

Grannas K, Arngården L, Lönn P, ..., Zieba A, Söderberg O

J. Mol. Biol. 427 (21) 3407-3415 [2015-10-23; online 2015-05-01]

Affiliated researcher

PubMed DOI Crossref

Identification and characterization of VEGF-A-responsive neutrophils expressing CD49d, VEGFR1, and CXCR4 in mice and humans.

Massena S, Christoffersson G, Vågesjö E, ..., Kreuger J, Phillipson M

Blood 126 (17) 2016-2026 [2015-10-22; online 2015-08-18]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

The effect of N-methylation of amino acids (Ac-X-OMe) on solubility and conformation: a DFT study.

Md Abdur Rauf S, Arvidsson PI, Albericio F, ..., Kruger HG, Honarparvar B

Org. Biomol. Chem. 13 (39) 9993-10006 [2015-10-21; online 2015-08-21]

Affiliated researcher

PubMed DOI Crossref

Genetic Polymorphisms in Vitamin D Metabolism and Signaling Genes and Risk of Breast Cancer: A Nested Case-Control Study.

Clendenen TV, Ge W, Koenig KL, ..., Sund M, Zeleniuch-Jacquotte A

PLoS ONE 10 (10) e0140478 [2015-10-21; online 2015-10-21]

Affiliated researcher

PubMed DOI Crossref

CGGBP1--an indispensable protein with ubiquitous cytoprotective functions.

Singh U, Westermark B

Ups. J. Med. Sci. 120 (4) 219-232 [2015-10-21; online 2015-10-21]

Affiliated researcher

PubMed DOI Crossref

Biotin-Genomic Run-On (Bio-GRO): A High-Resolution Method for the Analysis of Nascent Transcription in Yeast.

Jordán-Pla A, Miguel A, Serna E, Pelechano V, Pérez-Ortín JE

Methods in molecular biology (Clifton, N.J.) 1361 (-) 125-139 [2015-10-21; online 2015-10-21]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Structure-activity relationships for lipoprotein lipase agonists that lower plasma triglycerides in vivo.

Caraballo R, Larsson M, Nilsson SK, ..., Enquist PA, Elofsson M

Eur J Med Chem 103 (-) 191-209 [2015-10-20; online 2015-09-02]

Affiliated researcher

PubMed DOI Crossref

Induction of USP17 by combining BET and HDAC inhibitors in breast cancer cells.

Borbely G, Haldosen LA, Dahlman-Wright K, Zhao C

Oncotarget 6 (32) 33623-33635 [2015-10-20; online 2015-09-18]

Affiliated researcher

PubMed DOI Crossref

Controlled Lateral Positioning of Microparticles Inside Droplets Using Acoustophoresis.

Fornell A, Nilsson J, Jonsson L, ..., Joensson HN, Tenje M

Anal. Chem. 87 (20) 10521-10526 [2015-10-20; online 2015-10-09]

Affiliated researcher

PubMed DOI Crossref

Structural Basis for Oxygen Activation at a Heterodinuclear Manganese/Iron Cofactor.

Griese JJ, Kositzki R, Schrapers P, ..., Haumann M, Högbom M

J. Biol. Chem. 290 (42) 25254-25272 [2015-10-16; online 2015-08-31]

Affiliated researcher

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Genome-Wide Identification of Alternative Polyadenylation Events Using 3'T-Fill.

Wilkening S, Pelechano V, Steinmetz LM

Methods in molecular biology (Clifton, N.J.) 1358 (-) 295-302 [2015-10-16; online 2015-10-16]

SciLifeLab Fellow Vicent Pelechano

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Genetic and nutrient modulation of acetyl-CoA levels in Synechocystis for n-butanol production.

Anfelt J, Kaczmarzyk D, Shabestary K, ..., Uhlén M, Hudson EP

Microb Cell Fact 14 (1) 167 [2015-10-16; online 2015-10-16]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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Domestication Effects on Stress Induced Steroid Secretion and Adrenal Gene Expression in Chickens.

Fallahsharoudi A, de Kock N, Johnsson M, ..., Wright D, Jensen P

Sci Rep 5 (-) 15345 [2015-10-16; online 2015-10-16]

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Role of the AMP kinase in cytokine-induced human EndoC-βH1 cell death.

Fred RG, Kappe C, Ameur A, ..., Scharfmann R, Welsh N

Mol. Cell. Endocrinol. 414 (-) 53-63 [2015-10-15; online 2015-07-26]

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A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics.

Clausen MP, Sezgin E, Bernardino de la Serna J, ..., Lagerholm BC, Eggeling C

Methods 88 (-) 67-75 [2015-10-15; online 2015-06-27]

Erdinc Sezgin SciLifeLab Fellow

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Sensing Positive versus Negative Reward Signals through Adenylyl Cyclase-Coupled GPCRs in Direct and Indirect Pathway Striatal Medium Spiny Neurons.

Nair AG, Gutierrez-Arenas O, Eriksson O, Vincent P, Hellgren Kotaleski J

J. Neurosci. 35 (41) 14017-14030 [2015-10-14; online 2015-10-16]

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Mutation in NRAS in familial Noonan syndrome--case report and review of the literature.

Ekvall S, Wilbe M, Dahlgren J, ..., Annerén G, Bondeson ML

BMC Med. Genet. 16 (-) 95 [2015-10-14; online 2015-10-14]

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The folate-coupled enzyme MTHFD2 is a nuclear protein and promotes cell proliferation.

Gustafsson Sheppard N, Jarl L, Mahadessian D, ..., Jain M, Nilsson R

Sci Rep 5 (-) 15029 [2015-10-13; online 2015-10-13]

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A novel atlas of gene expression in human skeletal muscle reveals molecular changes associated with aging.

Su J, Ekman C, Oskolkov N, ..., Rung J, Hansson O

Skelet Muscle 5 (-) 35 [2015-10-09; online 2015-10-09]

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Thousands of RAD-seq Loci Fully Resolve the Phylogeny of the Highly Disjunct Arctic-Alpine Genus Diapensia (Diapensiaceae).

Hou Y, Nowak MD, Mirré V, ..., Brochmann C, Popp M

PLoS ONE 10 (10) e0140175 [2015-10-08; online 2015-10-08]

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The alternative splicing factor Nova2 regulates vascular development and lumen formation.

Giampietro C, Deflorian G, Gallo S, ..., Dejana E, Ghigna C

Nat Commun 6 (-) 8479 [2015-10-08; online 2015-10-08]

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Proteomics Analysis Reveals Distinct Corona Composition on Magnetic Nanoparticles with Different Surface Coatings: Implications for Interactions with Primary Human Macrophages.

Vogt C, Pernemalm M, Kohonen P, ..., Toprak MS, Fadeel B

PLoS ONE 10 (10) e0129008 [2015-10-07; online 2015-10-07]

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Extensive weight loss reveals distinct gene expression changes in human subcutaneous and visceral adipose tissue.

Mardinoglu A, Heiker JT, Gärtner D, ..., Nielsen J, Blüher M

Sci Rep 5 (1) 14841 [2015-10-05; online 2015-10-05]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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An ace-1 gene duplication resorbs the fitness cost associated with resistance in Anopheles gambiae, the main malaria mosquito.

Assogba BS, Djogbénou LS, Milesi P, ..., Labbé P, Weill M

Sci Rep 5 (-) 14529 [2015-10-05; online 2015-10-05]

Pascal Milesi SciLifeLab Fellow

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Gene-pseudogene evolution: a probabilistic approach.

Mahmudi O, Sennblad B, Arvestad L, Nowick K, Lagergren J

BMC Genomics 16 Suppl 10 (-) S12 [2015-10-02; online 2015-10-02]

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Expanding the Catalytic Triad in Epoxide Hydrolases and Related Enzymes.

Amrein BA, Bauer P, Duarte F, ..., Widersten M, Kamerlin SC

ACS Catal 5 (10) 5702-5713 [2015-10-02; online 2015-08-17]

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Transcriptome Sequencing Reveals PCAT5 as a Novel ERG-Regulated Long Noncoding RNA in Prostate Cancer.

Ylipää A, Kivinummi K, Kohvakka A, ..., Visakorpi T, Nykter M

Cancer Res. 75 (19) 4026-4031 [2015-10-01; online 2015-08-17]

DDLS Fellow Kimmo Kartasalo

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Timeless Interacts with PARP-1 to Promote Homologous Recombination Repair.

Xie S, Mortusewicz O, Ma HT, ..., Helleday T, Qian C

Mol. Cell 60 (1) 163-176 [2015-10-01; online 2015-09-03]

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Spatiotemporal Heterogeneity Characterizes the Genetic Landscape of Pheochromocytoma and Defines Early Events in Tumorigenesis.

Crona J, Backman S, Maharjan R, ..., Hellman P, Björklund P

Clin. Cancer Res. 21 (19) 4451-4460 [2015-10-01; online 2015-05-19]

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Neuropeptide Y family receptors Y1 and Y2 from sea lamprey, Petromyzon marinus.

Xu B, Lagman D, Sundström G, Larhammar D

Gen. Comp. Endocrinol. 222 (-) 106-115 [2015-10-01; online 2015-08-06]

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Nanoscopy—imaging life at the nanoscale: a Nobel Prize achievement with a bright future

Blom H, Bates M

Phys. Scr. 90 (10) 108010 [2015-10-01; online 2015-09-22]

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Microchip-Based Single-Cell Imaging Reveals That CD56dimCD57-KIR-NKG2A+ NK Cells Have More Dynamic Migration Associated with Increased Target Cell Conjugation and Probability of Killing Compared to CD56dimCD57-KIR-NKG2A- NK Cells.

Forslund E, Sohlberg E, Enqvist M, ..., Malmberg KJ, Önfelt B

J. Immunol. 195 (7) 3374-3381 [2015-10-01; online 2015-08-28]

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Homozygous loss-of-function variants in European cosmopolitan and isolate populations.

Kaiser VB, Svinti V, Prendergast JG, ..., Semple CA, Wilson JF

Hum. Mol. Genet. 24 (19) 5464-5474 [2015-10-01; online 2015-07-14]

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Transcriptome Profiling Reveals Degree of Variability in Induced Pluripotent Stem Cell Lines: Impact for Human Disease Modeling.

Schuster J, Halvardson J, Pilar Lorenzo L, ..., Feuk L, Dahl N

Cell Reprogram 17 (5) 327-337 [2015-10-00; online 2015-09-08]

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The gut microbiota modulates host amino acid and glutathione metabolism in mice

Mardinoglu A, Shoaie S, Bergentall M, ..., Bäckhed F, Nielsen J

Mol Syst Biol 11 (10) 834 [2015-10-00; online 2015-10-16]

Adil Mardinoglu SciLifeLab Fellow

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The effects of age and gender on plasma levels of 63 cytokines.

Larsson A, Carlsson L, Gordh T, ..., Thulin M, Kamali-Moghaddam M

J. Immunol. Methods 425 (-) 58-61 [2015-10-00; online 2015-06-14]

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The cyanobacterium Mastigocladus fulfills the nitrogen demand of a terrestrial hot spring microbial mat.

Estrella Alcamán M, Fernandez C, Delgado A, Bergman B, Díez B

ISME J 9 (10) 2290-2303 [2015-10-00; online 2015-07-31]

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The complex interplay between cell-intrinsic and cell-extrinsic factors driving the evolution of chronic lymphocytic leukemia.

Sutton LA, Rosenquist R

Semin. Cancer Biol. 34 (-) 22-35 [2015-10-00; online 2015-05-09]

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The Influence of Age and Sex on Genetic Associations with Adult Body Size and Shape: A Large-Scale Genome-Wide Interaction Study.

Winkler TW, Justice AE, Graff M, ..., Kutalik Z, Loos RJ

PLoS Genet 11 (10) e1005378 [2015-10-00; online 2015-10-01]

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The Human Gut Microbiome as a Transporter of Antibiotic Resistance Genes between Continents.

Bengtsson-Palme J, Angelin M, Huss M, ..., Larsson DG, Johansson A

Antimicrob. Agents Chemother. 59 (10) 6551-6560 [2015-10-00; online 2015-08-10]

Affiliated researcher DDLS Fellow Johan Bengtsson-Palme

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Targeting protein-protein interactions (PPIs) of transcription factors: Challenges of intrinsically disordered proteins (IDPs) and regions (IDRs).

Sammak S, Zinzalla G

Prog. Biophys. Mol. Biol. 119 (1) 41-46 [2015-10-00; online 2015-06-27]

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Tandem Benzophenone Amino Pyridines, Potent and Selective Inhibitors of Human Leukotriene C4 Synthase.

Kleinschmidt TK, Haraldsson M, Basavarajappa D, ..., Lindbom L, Haeggström JZ

J. Pharmacol. Exp. Ther. 355 (1) 108-116 [2015-10-00; online 2015-08-17]

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Systematic screening of imaging biomarkers for the Islets of Langerhans, among clinically available positron emission tomography tracers.

Karlsson F, Antonodimitrakis PC, Eriksson O

Nucl. Med. Biol. 42 (10) 762-769 [2015-10-00; online 2015-06-10]

Olof Eriksson SciLifeLab Fellow

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Supraphysiological hormonal status, anxiety disorders, and COMT Val/Val genotype are associated with reduced sensorimotor gating in women.

Comasco E, Hellgren C, Olivier J, Skalkidou A, Sundström Poromaa I

Psychoneuroendocrinology 60 (-) 217-223 [2015-10-00; online 2015-07-02]

Erika Comasco SciLifeLab Fellow

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Soluble Tumor Necrosis Factor Receptor 1 Is Associated with Glomerular Filtration Rate Progression and Incidence of Chronic Kidney Disease in Two Community-Based Cohorts of Elderly Individuals.

Carlsson AC, Nordquist L, Larsson TE, ..., Lind L, Ärnlöv J

Cardiorenal Med 5 (4) 278-288 [2015-10-00; online 2015-07-31]

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Signatures of post-zygotic structural genetic aberrations in the cells of histologically normal breast tissue that can predispose to sporadic breast cancer.

Forsberg LA, Rasi C, Pekar G, ..., Tot T, Dumanski JP

Genome Res. 25 (10) 1521-1535 [2015-10-00; online 2015-10-03]

Affiliated researcher

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RNA editing of non-coding RNA and its role in gene regulation.

Daniel C, Lagergren J, Öhman M

Biochimie 117 (-) 22-27 [2015-10-00; online 2015-06-05]

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Quantitative Mass Spectrometry Reveals Partial Translational Regulation for Dosage Compensation in Chicken.

Uebbing S, Konzer A, Xu L, ..., Bergquist J, Ellegren H

Mol. Biol. Evol. 32 (10) 2716-2725 [2015-10-00; online 2015-06-24]

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Profound parental bias associated with chromosome 14 acquired uniparental disomy indicates targeting of an imprinted locus.

Chase A, Leung W, Tapper W, ..., Dumanski JP, Cross NC

Leukemia 29 (10) 2069-2074 [2015-10-00; online 2015-05-20]

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Positive Modulation of the Glycine Receptor by Means of Glycine Receptor-Binding Aptamers.

Shalaly ND, Aneiros E, Blank M, ..., Andersson CV, Sandberg K

J Biomol Screen 20 (9) 1112-1123 [2015-10-00; online 2015-06-12]

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Neuroimaging the Menstrual Cycle and Premenstrual Dysphoric Disorder.

Comasco E, Sundström-Poromaa I

Curr Psychiatry Rep 17 (10) 77 [2015-10-00; online 2015-08-15]

Erika Comasco SciLifeLab Fellow

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Mitogenomic analysis of a 50-generation chicken pedigree reveals a rapid rate of mitochondrial evolution and evidence for paternal mtDNA inheritance.

Alexander M, Ho SY, Molak M, ..., Andersson L, Larson G

Biol. Lett. 11 (10) - [2015-10-00; online 2015-10-30]

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Intracellular sirolimus concentration is reduced by tacrolimus in human pancreatic islets in vitro.

Kloster-Jensen K, Vethe NT, Bremer S, ..., Bergan S, Scholz H

Transpl. Int. 28 (10) 1152-1161 [2015-10-00; online 2015-06-23]

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Influence of surface modification and static pressure on microdialysis protein extraction efficiency.

Chu J, Undin T, Lind SB, Hjort K, Dahlin AP

Biomed Microdevices 17 (5) 96 [2015-10-00; online 2015-09-08]

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In Vivo Effects of Mesenchymal Stromal Cells in Two Patients With Severe Acute Respiratory Distress Syndrome.

Simonson OE, Mougiakakos D, Heldring N, ..., Grinnemo KH, Le Blanc K

Stem Cells Transl Med 4 (10) 1199-1213 [2015-10-00; online 2015-08-18]

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Graft function 1 year after pregnancy in an islet-transplanted patient.

Schive SW, Scholz H, Sahraoui A, ..., Foss A, Jenssen TG

Transpl. Int. 28 (10) 1235-1239 [2015-10-00; online 2015-05-11]

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Genetic variance estimation with imputed variants finds negligible missing heritability for human height and body mass index.

Yang J, Bakshi A, Zhu Z, ..., Goddard ME, Visscher PM

Nat. Genet. 47 (10) 1114-1120 [2015-10-00; online 2015-08-31]

Affiliated researcher

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Flight-induced changes in gene expression in the Glanville fritillary butterfly.

Kvist J, Mattila AL, Somervuo P, ..., Frilander MJ, Hanski I

Mol. Ecol. 24 (19) 4886-4900 [2015-10-00; online 2015-09-04]

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Determination of 21-hydroxylase autoantibodies: inter-laboratory concordance in the Euradrenal International Serum Exchange Program.

Falorni A, Bini V, Betterle C, ..., Lernmark Å, Husebye E

Clin. Chem. Lab. Med. 53 (11) 1761-1770 [2015-10-00; online 2015-03-27]

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Cis-Regulatory Changes Associated with a Recent Mating System Shift and Floral Adaptation in Capsella.

Steige KA, Reimegård J, Koenig D, Scofield DG, Slotte T

Mol. Biol. Evol. 32 (10) 2501-2514 [2015-10-00; online 2015-08-28]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

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BCG Skin Infection Triggers IL-1R-MyD88-Dependent Migration of EpCAMlow CD11bhigh Skin Dendritic cells to Draining Lymph Node During CD4+ T-Cell Priming.

Bollampalli VP, Harumi Yamashiro L, Feng X, ..., Nylén S, Rothfuchs AG

PLoS Pathog 11 (10) e1005206 [2015-10-00; online 2015-10-06]

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Acoustophoretic removal of proteins from blood components.

Tenje M, Lundgren MN, Swärd-Nilsson AM, ..., Lyxe L, Lenshof A

Biomed Microdevices 17 (5) 95 [2015-10-00; online 2015-09-01]

Affiliated researcher

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Acid-Base Catalyst Discriminates between a Fructose 6-Phosphate Aldolase and a Transaldolase

Stellmacher L, Sandalova T, Leptihn S, ..., Sprenger GA, Samland AK

ChemCatChem 7 (19) 3140-3151 [2015-10-00; online 2015-08-06]

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A comprehensive 1,000 Genomes-based genome-wide association meta-analysis of coronary artery disease.

Nikpay M, Goel A, Won HH, ..., Samani NJ, Farrall M

Nat. Genet. 47 (10) 1121-1130 [2015-10-00; online 2015-09-07]

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Virtual Screening for Transition State Analogue Inhibitors of IRAP Based on Quantum Mechanically Derived Reaction Coordinates.

Svensson F, Engen K, Lundbäck T, Larhed M, Sköld C

J Chem Inf Model 55 (9) 1984-1993 [2015-09-28; online 2015-08-14]

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Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies).

Delhomme N, Sundström G, Zamani N, ..., Grabherr MG, Street NR

PLoS ONE 10 (9) e0139080 [2015-09-28; online 2015-09-28]

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Identification of Novel Epigenetic Markers of Prostate Cancer by NotI-Microarray Analysis.

Dmitriev AA, Rosenberg EE, Krasnov GS, ..., Senchenko VN, Kashuba VI

Dis. Markers 2015 (-) 241301 [2015-09-28; online 2015-09-28]

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Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes.

Saw JH, Spang A, Zaremba-Niedzwiedzka K, ..., Guy L, Ettema TJ

Philos. Trans. R. Soc. Lond., B, Biol. Sci. 370 (1678) 20140328 [2015-09-26; online 2015-09-02]

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Polymorphisms in Genes of Relevance for Oestrogen and Oxytocin Pathways and Risk of Barrett's Oesophagus and Oesophageal Adenocarcinoma: A Pooled Analysis from the BEACON Consortium.

Lagergren K, Ek WE, Levine D, ..., Nyren O, Lagergren J

PLoS ONE 10 (9) e0138738 [2015-09-25; online 2015-09-25]

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Neuropeptide S- and Neuropeptide S receptor-expressing neuron populations in the human pons.

Adori C, Barde S, Bogdanovic N, ..., Kovacs GG, Hökfelt T

Front Neuroanat 9 (-) 126 [2015-09-25; online 2015-09-25]

Affiliated researcher

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Molecular architecture of the active mitochondrial protein gate.

Shiota T, Imai K, Qiu J, ..., Lithgow T, Endo T

Science 349 (6255) 1544-1548 [2015-09-25; online 2015-09-26]

Affiliated researcher

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Highly specific DNA detection employing ligation on suspension bead array readout.

Mezger A, Kühnemund M, Nilsson M, Herthnek D

N Biotechnol 32 (5) 504-510 [2015-09-25; online 2015-02-11]

Affiliated researcher

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Development of Immunoassays for the Quantitative Assessment of Amyloid-β in the Presence of Therapeutic Antibody: Application to Pre-Clinical Studies.

Bogstedt A, Groves M, Tan K, ..., McFarlane M, Höglund K

J. Alzheimers Dis. 46 (4) 1091-1101 [2015-09-25; online 2015-09-25]

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Canine CNGA3 Gene Mutations Provide Novel Insights into Human Achromatopsia-Associated Channelopathies and Treatment

Tanaka N, Dutrow EV, Miyadera K, ..., Tanaka JC, Guziewicz KE

PLoS ONE 10 (9) e0138943 [2015-09-25; online 2015-09-25]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Genome-wide maps of nuclear lamina interactions in single human cells.

Kind J, Pagie L, de Vries SS, ..., van Oudenaarden A, van Steensel B

Cell 163 (1) 134-147 [2015-09-24; online 2015-09-10]

Affiliated researcher Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Ancient genomes link early farmers from Atapuerca in Spain to modern-day Basques.

Günther T, Valdiosera C, Malmström H, ..., Götherström A, Jakobsson M

Proc. Natl. Acad. Sci. U.S.A. 112 (38) 11917-11922 [2015-09-22; online 2015-09-08]

Affiliated researcher

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Gene expression profiling of pre-eclamptic placentae by RNA sequencing.

Kaartokallio T, Cervera A, Kyllönen A, ..., Laivuori H, FINNPEC Core Investigator Group

Sci Rep 5 (-) 14107 [2015-09-21; online 2015-09-21]

Affiliated researcher

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Enhanced Protein Production in Escherichia coli by Optimization of Cloning Scars at the Vector-Coding Sequence Junction.

Mirzadeh K, Martínez V, Toddo S, ..., Nørholm MH, Daley DO

ACS Synth. Biol. 4 (9) 959-965 [2015-09-18; online 2015-05-15]

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PARP1- and CTCF-Mediated Interactions between Active and Repressed Chromatin at the Lamina Promote Oscillating Transcription.

Zhao H, Sifakis EG, Sumida N, ..., Imreh MP, Göndör A

Mol. Cell 59 (6) 984-997 [2015-09-17; online 2015-08-27]

Affiliated researcher

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Genetic and morphological evidence for introgression between three species of willows.

Fogelqvist J, Verkhozina AV, Katyshev AI, ..., Lascoux M, Berlin S

BMC Evol Biol BMC Evolutionary Biology 15 (-) 193 [2015-09-16; online 2015-09-16]

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WNT3 involvement in human bladder exstrophy and cloaca development in zebrafish.

Baranowska Körberg I, Hofmeister W, Markljung E, ..., Lindstrand A, Nordenskjöld A

Hum. Mol. Genet. 24 (18) 5069-5078 [2015-09-15; online 2015-06-23]

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Modeling the mechanisms of biological GTP hydrolysis.

Carvalho AT, Szeler K, Vavitsas K, Åqvist J, Kamerlin SC

Arch. Biochem. Biophys. 582 (-) 80-90 [2015-09-15; online 2015-02-27]

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HLA class I is most tightly linked to levels of tapasin compared with other antigen-processing proteins in glioblastoma.

Thuring C, Follin E, Geironson L, ..., Buus S, Paulsson KM

Br. J. Cancer 113 (6) 952-962 [2015-09-15; online 2015-08-27]

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Glioma-derived plasminogen activator inhibitor-1 (PAI-1) regulates the recruitment of LRP1 positive mast cells.

Roy A, Coum A, Marinescu VD, ..., Pontén F, Tchougounova E

Oncotarget 6 (27) 23647-23661 [2015-09-15; online 2015-07-15]

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Genetics and Prognostication in Splenic Marginal Zone Lymphoma: Revelations from Deep Sequencing.

Parry M, Rose-Zerilli MJ, Ljungström V, ..., Oscier D, Strefford JC

Clin. Cancer Res. 21 (18) 4174-4183 [2015-09-15; online 2015-03-16]

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Comparative genomic analyses of freshly isolated Giardia intestinalis assemblage A isolates.

Ankarklev J, Franzén O, Peirasmaki D, ..., Andersson B, Svärd SG

BMC Genomics 16 (-) 697 [2015-09-15; online 2015-09-15]

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E-cadherin can limit the transforming properties of activating β-catenin mutations.

Huels DJ, Ridgway RA, Radulescu S, ..., Clarke AR, Sansom OJ

EMBO J. 34 (18) 2321-2333 [2015-09-14; online 2015-08-03]

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Determination of obesity associated gene variants related to TMEM18 through ultra-deep targeted re-sequencing in a case-control cohort for pediatric obesity.

Rask-Andersen M, Sällman Almén M, Jacobsson JA, ..., Fredriksson R, Schiöth HB

Genet Res (Camb) 97 (-) e16 [2015-09-14; online 2015-09-14]

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Novel PRD-like homeodomain transcription factors and retrotransposon elements in early human development.

Töhönen V, Katayama S, Vesterlund L, ..., Hovatta O, Kere J

Nat Commun 6 (-) 8207 [2015-09-11; online 2015-09-11]

Affiliated researcher

PubMed DOI Crossref

Rare and low-frequency variants and their association with plasma levels of fibrinogen, FVII, FVIII, and vWF.

Huffman JE, de Vries PS, Morrison AC, ..., O'Donnell CJ, Smith NL

Blood 126 (11) e19-e29 [2015-09-10; online 2015-06-23]

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PubMed DOI Crossref

STED-FLCS: An Advanced Tool to Reveal Spatiotemporal Heterogeneity of Molecular Membrane Dynamics.

Vicidomini G, Ta H, Honigmann A, ..., Hell SW, Eggeling C

Nano Lett. 15 (9) 5912-5918 [2015-09-09; online 2015-08-07]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

The epigenetic signature of subcutaneous fat cells is linked to altered expression of genes implicated in lipid metabolism in obese women.

Arner P, Sinha I, Thorell A, ..., Dahlman-Wright K, Dahlman I

Clin Epigenetics 7 (-) 93 [2015-09-08; online 2015-09-08]

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Cotranslational Protein Folding inside the Ribosome Exit Tunnel.

Nilsson OB, Hedman R, Marino J, ..., Beckmann R, von Heijne G

Cell Reports 12 (10) 1533-1540 [2015-09-08; online 2015-08-28]

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Roles of miR-196a on gene regulation of neuroendocrine tumor cells.

Li SC, Shi H, Khan M, ..., Öberg K, Giandomenico V

Mol. Cell. Endocrinol. 412 (-) 131-139 [2015-09-05; online 2015-06-04]

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Quest for Missing Proteins: Update 2015 on Chromosome-Centric Human Proteome Project.

Horvatovich P, Lundberg EK, Chen YJ, ..., Paik YK, Hancock WS

J. Proteome Res. 14 (9) 3415-3431 [2015-09-04; online 2015-07-23]

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PubMed DOI Crossref

Metrics for the Human Proteome Project 2015: Progress on the Human Proteome and Guidelines for High-Confidence Protein Identification.

Omenn GS, Lane L, Lundberg EK, ..., Nesvizhskii AI, Deutsch EW

J. Proteome Res. 14 (9) 3452-3460 [2015-09-04; online 2015-07-30]

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SUV3 helicase is required for correct processing of mitochondrial transcripts.

Clemente P, Pajak A, Laine I, ..., Freyer C, Wredenberg A

Nucleic Acids Res. 43 (15) 7398-7413 [2015-09-03; online 2015-07-07]

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Mutations in SLC12A5 in epilepsy of infancy with migrating focal seizures.

Stödberg T, McTague A, Ruiz AJ, ..., Wedell A, Kurian MA

Nat Commun 6 (-) 8038 [2015-09-03; online 2015-09-03]

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Efficient exploration of pan-cancer networks by generalized covariance selection and interactive web content.

Kling T, Johansson P, Sanchez J, ..., Jörnsten R, Nelander S

Nucleic Acids Res. 43 (15) e98 [2015-09-03; online 2015-05-07]

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Transplanted Bone Marrow-Derived Cells Contribute to Human Adipogenesis.

Rydén M, Uzunel M, Hård JL, ..., Mattsson J, Arner P

Cell Metab. 22 (3) 408-417 [2015-09-01; online 2015-07-16]

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A Single Conserved Residue Mediates Binding of the Ribonucleotide Reductase Catalytic Subunit RRM1 to RRM2 and Is Essential for Mouse Development.

Specks J, Lecona E, Lopez-Contreras AJ, Fernandez-Capetillo O

Mol. Cell. Biol. 35 (17) 2910-2917 [2015-09-01; online 2015-06-15]

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miR-200a inhibits migration of triple-negative breast cancer cells through direct repression of the EPHA2 oncogene.

Tsouko E, Wang J, Frigo DE, Aydoğdu E, Williams C

Carcinogenesis 36 (9) 1051-1060 [2015-09-00; online 2015-06-18]

Affiliated researcher

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[11C]Carfentanil Binds Preferentially to μ-Opioid Receptor Subtype 1 Compared to Subtype 2

Eriksson O, Antoni G

Mol Imaging 14 (9) 7290.2015.00019 [2015-09-00; online 2015-09-00]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Whole exome sequencing identifies LRP1 as a pathogenic gene in autosomal recessive keratosis pilaris atrophicans.

Klar J, Schuster J, Khan TN, ..., Baig SM, Dahl N

J. Med. Genet. 52 (9) 599-606 [2015-09-00; online 2015-07-03]

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Use of a proximity extension assay proteomics chip to discover new biomarkers for human atherosclerosis.

Lind L, Ärnlöv J, Lindahl B, ..., Sundström J, Ingelsson E

Atherosclerosis 242 (1) 205-210 [2015-09-00; online 2015-07-14]

Affiliated researcher

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Transcriptomics of colour patterning and coloration shifts in crows.

Poelstra JW, Vijay N, Hoeppner MP, Wolf JB

Mol. Ecol. 24 (18) 4617-4628 [2015-09-00; online 2015-09-10]

Affiliated researcher

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Towards a stereoselective synthesis of α,α-disubstituted proline analogues

Das SK, Bhatt N, Mujahid M, ..., Naicker T, Govender T

Tetrahedron Letters 56 (37) 5172-5174 [2015-09-00; online 2015-09-00]

Affiliated researcher

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The clinical impact of IKZF1 deletions in paediatric B-cell precursor acute lymphoblastic leukaemia is independent of minimal residual disease stratification in Nordic Society for Paediatric Haematology and Oncology treatment protocols used between 1992 and 2013.

Olsson L, Ivanov Öfverholm I, Norén-Nyström U, ..., Barbany G, Johansson B

Br. J. Haematol. 170 (6) 847-858 [2015-09-00; online 2015-05-27]

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Systemic Lupus Erythematosus--A Disease with A Dysregulated Type I Interferon System.

Hagberg N, Rönnblom L

Scand. J. Immunol. 82 (3) 199-207 [2015-09-00; online 2015-06-24]

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Synthesis of enantiopure angiotensin II type 2 receptor [AT2R] antagonist EMA401

Wakchaure PB, Bremberg U, Wannberg J, Larhed M

Tetrahedron 71 (38) 6881-6887 [2015-09-00; online 2015-09-00]

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Species Tree Inference Using a Mixture Model.

Ullah I, Parviainen P, Lagergren J

Mol. Biol. Evol. 32 (9) 2469-2482 [2015-09-00; online 2015-05-11]

Affiliated researcher

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Perfluoroalkyl substances (PFAS) including structural PFOS isomers in plasma from elderly men and women from Sweden: Results from the Prospective Investigation of the Vasculature in Uppsala Seniors (PIVUS).

Salihovic S, Kärrman A, Lind L, ..., Lindström G, van Bavel B

Environ Int 82 (-) 21-27 [2015-09-00; online 2015-05-22]

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Peptide-Centric Proteome Analysis: An Alternative Strategy for the Analysis of Tandem Mass Spectrometry Data.

Ting YS, Egertson JD, Payne SH, ..., Noble WS, MacCoss MJ

Mol. Cell Proteomics 14 (9) 2301-2307 [2015-09-00; online 2015-07-27]

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Newtonian cell interactions shape natural killer cell education.

Goodridge JP, Önfelt B, Malmberg KJ

Immunol. Rev. 267 (1) 197-213 [2015-09-00; online 2015-08-19]

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Mechanisms of carbon fixation and engineering for increased carbon fixation in cyanobacteria

Durall C, Lindblad P

Algal Research 11 (-) 263-270 [2015-09-00; online 2015-09-00]

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Finnsson J, Sundblom J, Dahl N, Melberg A, Raininko R

Ann. Neurol. 78 (3) 412-425 [2015-09-00; online 2015-07-27]

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Involvement of CD9 and PDGFR in migration is evolutionarily conserved from Drosophila glia to human glioma.

Jeibmann A, Halama K, Witte HT, ..., Klämbt C, Paulus W

J. Neurooncol. 124 (3) 373-383 [2015-09-00; online 2015-07-30]

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IPeak: An open source tool to combine results from multiple MS/MS search engines.

Wen B, Du C, Li G, ..., Xu X, Wang J

Proteomics 15 (17) 2916-2920 [2015-09-00; online 2015-08-06]

Affiliated researcher

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Gut microbiome and innate immune response patterns in IgE-associated eczema.

West CE, Rydén P, Lundin D, ..., Tulic MK, Prescott SL

Clin. Exp. Allergy 45 (9) 1419-1429 [2015-09-00; online 2015-05-07]

Affiliated researcher

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Exome sequencing followed by genotyping suggests SYPL2 as a susceptibility gene for morbid obesity.

Jiao H, Arner P, Gerdhem P, ..., Kere J, Dahlman I

Eur. J. Hum. Genet. 23 (9) 1216-1222 [2015-09-00; online 2014-11-19]

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Discovering Genetic Interactions in Large-Scale Association Studies by Stage-wise Likelihood Ratio Tests.

Frånberg M, Gertow K, Hamsten A, ..., Lagergren J, Sennblad B

PLoS Genet 11 (9) e1005502 [2015-09-00; online 2015-09-24]

Affiliated researcher

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Clumpak: a program for identifying clustering modes and packaging population structure inferences across K.

Kopelman NM, Mayzel J, Jakobsson M, Rosenberg NA, Mayrose I

Mol Ecol Resour 15 (5) 1179-1191 [2015-09-00; online 2015-02-27]

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Chlorophyll f-driven photosynthesis in a cavernous cyanobacterium.

Behrendt L, Brejnrod A, Schliep M, ..., Larkum AW, Kühl M

ISME J 9 (9) 2108-2111 [2015-09-00; online 2015-02-10]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Auxotrophy and intrapopulation complementary in the 'interactome' of a cultivated freshwater model community.

Garcia SL, Buck M, McMahon KD, ..., Eiler A, Warnecke F

Mol. Ecol. 24 (17) 4449-4459 [2015-09-00; online 2015-08-08]

Affiliated researcher Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

Analysis of the genetic architecture of susceptibility to cervical cancer indicates that common SNPs explain a large proportion of the heritability.

Chen D, Cui T, Ek WE, ..., Wang H, Gyllensten U

Carcinogenesis 36 (9) 992-998 [2015-09-00; online 2015-06-04]

Affiliated researcher

PubMed DOI Crossref

Addiction to MTH1 protein results in intense expression in human breast cancer tissue as measured by liquid chromatography-isotope-dilution tandem mass spectrometry.

Coskun E, Jaruga P, Jemth AS, ..., Helleday T, Dizdaroglu M

DNA Repair (Amst.) 33 (-) 101-110 [2015-09-00; online 2015-06-23]

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Prenatal and Postpartum Evening Salivary Cortisol Levels in Association with Peripartum Depressive Symptoms.

Iliadis SI, Comasco E, Sylvén S, ..., Sundström Poromaa I, Skalkidou A

PLoS ONE 10 (8) e0135471 [2015-08-31; online 2015-08-31]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Molecular profiling of prostate cancer derived exosomes may reveal a predictive signature for response to docetaxel.

Kharaziha P, Chioureas D, Rutishauser D, ..., Nilsson S, Panaretakis T

Oncotarget 6 (25) 21740-21754 [2015-08-28; online 2015-04-07]

Affiliated researcher

PubMed DOI Crossref

The Nucleus-Localized Epidermal Growth Factor Receptor Is SUMOylated.

Packham S, Lin Y, Zhao Z, ..., Rutishauser D, Larsson O

Biochemistry 54 (33) 5157-5166 [2015-08-25; online 2015-08-14]

Affiliated researcher

PubMed DOI Crossref

Microfluidic screening and whole-genome sequencing identifies mutations associated with improved protein secretion by yeast.

Huang M, Bai Y, Sjostrom SL, ..., Andersson-Svahn H, Nielsen J

Proc. Natl. Acad. Sci. U.S.A. 112 (34) E4689-E4696 [2015-08-25; online 2015-08-10]

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POPULATION GENETICS. Genomic evidence for the Pleistocene and recent population history of Native Americans.

Raghavan M, Steinrücken M, Harris K, ..., Nielsen R, Willerslev E

Science 349 (6250) aab3884 [2015-08-21; online 2015-07-21]

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Increased resistance to proteasome inhibitors in multiple myeloma mediated by cIAP2--implications for a combinatorial treatment.

Fristedt Duvefelt C, Lub S, Agarwal P, ..., Vanderkerken K, Jernberg Wiklund H

Oncotarget 6 (24) 20621-20635 [2015-08-21; online 2015-06-04]

Affiliated researcher

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Harmful somatic amino acid substitutions affect key pathways in cancers.

Niroula A, Vihinen M

BMC Med Genomics 8 (-) 53 [2015-08-19; online 2015-08-19]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Experiences with workflows for automating data-intensive bioinformatics.

Spjuth O, Bongcam-Rudloff E, Hernández GC, ..., Siretskiy A, Vassilev D

Biol. Direct 10 (-) 43 [2015-08-19; online 2015-08-19]

Affiliated researcher

PubMed DOI Crossref

Conformational gating dynamics in the GluCl anion-selective chloride channel.

Yoluk Ö, Lindahl E, Andersson M

ACS Chem Neurosci 6 (8) 1459-1467 [2015-08-19; online 2015-06-02]

Affiliated researcher

PubMed DOI Crossref

Factors mediating plastid dependency and the origins of parasitism in apicomplexans and their close relatives

Janouškovec J, Tikhonenkov DV, Burki F, ..., Mylnikov AP, Keeling PJ

Proceedings of the National Academy of Sciences 112 (33) 10200-10207 [2015-08-18; online 2015-02-25]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium.

Yu NY, Hallström BM, Fagerberg L, ..., Uhlén M, Daub CO

Nucleic Acids Res. 43 (14) 6787-6798 [2015-08-18; online 2015-06-27]

Affiliated researcher

PubMed DOI Crossref

Genome-wide association study of toxic metals and trace elements reveals novel associations.

Ng E, Lind PM, Lindgren C, ..., Morris A, Lind L

Hum. Mol. Genet. 24 (16) 4739-4745 [2015-08-15; online 2015-05-29]

Affiliated researcher

PubMed DOI Crossref

Gene × dietary pattern interactions in obesity: analysis of up to 68 317 adults of European ancestry.

Nettleton JA, Follis JL, Ngwa JS, ..., Loos RJ, Franks PW

Hum. Mol. Genet. 24 (16) 4728-4738 [2015-08-15; online 2015-05-20]

Affiliated researcher

PubMed DOI Crossref

miR-184 Regulates Pancreatic β-Cell Function According to Glucose Metabolism.

Tattikota SG, Rathjen T, Hausser J, ..., Friedländer MR, Poy MN

J Biol Chem 290 (33) 20284-20294 [2015-08-14; online 2015-07-07]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Sex-Specific Effects of Adiponectin on Carotid Intima-Media Thickness and Incident Cardiovascular Disease.

Persson J, Strawbridge RJ, McLeod O, ..., Hamsten A, IMPROVE Study Group

J Am Heart Assoc 4 (8) e001853 [2015-08-14; online 2015-08-14]

Affiliated researcher

PubMed DOI Crossref

Genome-wide association study of warfarin maintenance dose in a Brazilian sample.

Parra EJ, Botton MR, Perini JA, ..., Hutz MH, Suarez-Kurtz G

Pharmacogenomics 16 (11) 1253-1263 [2015-08-12; online 2015-08-12]

Affiliated researcher

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A Multi-Breed Genome-Wide Association Analysis for Canine Hypothyroidism Identifies a Shared Major Risk Locus on CFA12.

Bianchi M, Dahlgren S, Massey J, ..., Lingaas F, Rosengren Pielberg G

PLoS ONE 10 (8) e0134720 [2015-08-11; online 2015-08-11]

Affiliated researcher

PubMed DOI Crossref

Adaptive mutations in sugar metabolism restore growth on glucose in a pyruvate decarboxylase negative yeast strain.

Zhang Y, Liu G, Engqvist MK, ..., Siewers V, Nielsen J

Microb Cell Fact 14 (-) 116 [2015-08-08; online 2015-08-08]

Affiliated researcher

PubMed DOI Crossref

Nanopore arrays in a silicon membrane for parallel single-molecule detection: DNA translocation.

Zhang M, Schmidt T, Jemt A, ..., Lundeberg J, Linnros J

Nanotechnology 26 (31) 314002 [2015-08-07; online 2015-07-16]

Affiliated researcher

PubMed DOI Crossref

Comparative Proteomic Analysis of Human Liver Tissue and Isolated Hepatocytes with a Focus on Proteins Determining Drug Exposure.

Vildhede A, Wiśniewski JR, Norén A, Karlgren M, Artursson P

J. Proteome Res. 14 (8) 3305-3314 [2015-08-07; online 2015-07-20]

Affiliated researcher

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Quantifying Diet-Induced Metabolic Changes of the Human Gut Microbiome.

Shoaie S, Ghaffari P, Kovatcheva-Datchary P, ..., Bäckhed F, Nielsen J

Cell Metab. 22 (2) 320-331 [2015-08-04; online 2015-08-06]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Crystal structure, biochemical and cellular activities demonstrate separate functions of MTH1 and MTH2.

Carter M, Jemth AS, Hagenkort A, ..., Helleday T, Stenmark P

Nat Commun 6 (-) 7871 [2015-08-04; online 2015-08-04]

Affiliated researcher

PubMed DOI Crossref

Improved canine exome designs, featuring ncRNAs and increased coverage of protein coding genes.

Broeckx BJ, Hitte C, Coopman F, ..., Van Nieuwerburgh F, Deforce D

Sci Rep 5 (-) 12810 [2015-08-03; online 2015-08-03]

Affiliated researcher

PubMed DOI Crossref

Identifying and Assessing Interesting Subgroups in a Heterogeneous Population.

Lee W, Alexeyenko A, Pernemalm M, ..., Lehtiö J, Pawitan Y

Biomed Res Int 2015 (-) 462549 [2015-08-03; online 2015-08-03]

Affiliated researcher

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Heat differentiated complement factor profiling.

Hamsten C, Skattum L, Truedsson L, ..., Nilsson P, Neiman M

J Proteomics 126 (-) 155-162 [2015-08-03; online 2015-06-03]

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Genome-wide mapping of promoter-anchored interactions with close to single-enhancer resolution.

Sahlén P, Abdullayev I, Ramsköld D, ..., Lundeberg J, Sandberg R

Genome Biol. 16 (-) 156 [2015-08-03; online 2015-08-03]

Affiliated researcher

PubMed DOI Crossref

Analysis of the Human Prostate-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling Identifies TMEM79 and ACOXL as Two Putative, Diagnostic Markers in Prostate Cancer.

O'Hurley G, Busch C, Fagerberg L, ..., Uhlén M, Pontén F

PLoS ONE 10 (8) e0133449 [2015-08-03; online 2015-08-03]

Affiliated researcher

PubMed DOI Crossref

Secretome protein signature of human gastrointestinal stromal tumor cells.

Berglund E, Daré E, Branca RM, ..., Kim J, Bränström R

Exp. Cell Res. 336 (1) 158-170 [2015-08-01; online 2015-05-14]

Affiliated researcher

PubMed DOI Crossref

Epigenome-wide association study (EWAS) of BMI, BMI change and waist circumference in African American adults identifies multiple replicated loci.

Demerath EW, Guan W, Grove ML, ..., Pankow JS, Boerwinkle E

Hum. Mol. Genet. 24 (15) 4464-4479 [2015-08-01; online 2015-05-01]

Affiliated researcher

PubMed DOI Crossref

Effect of genetic variations on ticagrelor plasma levels and clinical outcomes.

Varenhorst C, Eriksson N, Johansson Å, ..., Wallentin L, PLATO Investigators

Eur. Heart J. 36 (29) 1901-1912 [2015-08-01; online 2015-05-02]

Affiliated researcher

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p73 is required for endothelial cell differentiation, migration and the formation of vascular networks regulating VEGF and TGFβ signaling.

Fernandez-Alonso R, Martin-Lopez M, Gonzalez-Cano L, ..., Marques MM, Marin MC

Cell Death Differ. 22 (8) 1287-1299 [2015-08-00; online 2015-01-09]

Affiliated researcher

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Vaccines targeting self-antigens: mechanisms and efficacy-determining parameters.

Saupe F, Huijbers EJ, Hein T, ..., Olsson AK, Hellman L

FASEB J. 29 (8) 3253-3262 [2015-08-00; online 2015-04-13]

Affiliated researcher

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Treatment with serotonin reuptake inhibitors during pregnancy is associated with elevated corticotropin-releasing hormone levels.

Hannerfors AK, Hellgren C, Schijven D, ..., Olivier JD, Sundström-Poromaa I

Psychoneuroendocrinology 58 (-) 104-113 [2015-08-00; online 2015-04-21]

Erika Comasco SciLifeLab Fellow

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Three-dimensional virtual histology of Silurian osteostracan scales revealed by synchrotron radiation microtomography.

Qu Q, Blom H, Sanchez S, Ahlberg P

J. Morphol. 276 (8) 873-888 [2015-08-00; online 2015-03-21]

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Polymorphisms in the ABCB1 gene and effect on outcome and toxicity in childhood acute lymphoblastic leukemia.

Gregers J, Gréen H, Christensen IJ, ..., Schmiegelow K, Peterson C

Pharmacogenomics J. 15 (4) 372-379 [2015-08-00; online 2015-01-13]

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New paradigms for metabolic modeling of human cells.

Mardinoglu A, Nielsen J

Curr. Opin. Biotechnol. 34 (-) 91-97 [2015-08-00; online 2015-01-02]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Membrane Protein Structure, Function, and Dynamics: a Perspective from Experiments and Theory

Cournia Z, Allen TW, Andricioaei I, ..., Smith JC, Bondar AN

J Membrane Biol 248 (4) 611-640 [2015-08-00; online 2015-06-11]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Inflammasomes of the intestinal epithelium

Sellin ME, Maslowski KM, Maloy KJ, Hardt WD

Trends in Immunology 36 (8) 442-450 [2015-08-00; online 2015-08-00]

Mikael Sellin SciLifeLab Fellow

DOI Crossref

Identification ofMoringa oleiferaprotein responsible for the decolorization and pesticide removal from drinking water and industrial effluent - anin silicoandin situevaluation

Pavankumar AR, Singh L

J. Chem. Technol. Biotechnol. 90 (8) 1521-1526 [2015-08-00; online 2014-07-22]

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Global miRNA expression and correlation with mRNA levels in primary human bone cells.

Laxman N, Rubin CJ, Mallmin H, ..., Grundberg E, Kindmark A

RNA 21 (8) 1433-1443 [2015-08-00; online 2015-06-15]

Affiliated researcher

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Genetic epidemiology, prevalence, and genotype-phenotype correlations in the Swedish population with osteogenesis imperfecta.

Lindahl K, Åström E, Rubin CJ, ..., Ljunggren Ö, Kindmark A

Eur. J. Hum. Genet. 23 (8) 1042-1050 [2015-08-00; online 2015-05-06]

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Estrogen receptor alpha and beta in health and disease.

Jia M, Dahlman-Wright K, Gustafsson JÅ

Best Pract. Res. Clin. Endocrinol. Metab. 29 (4) 557-568 [2015-08-00; online 2015-04-26]

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Clade- and species-specific features of genome evolution in the Saccharomycetaceae.

Wolfe KH, Armisén D, Proux-Wera E, ..., Gordon JL, Byrne KP

FEMS Yeast Res. 15 (5) fov035 [2015-08-00; online 2015-06-10]

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Candidate genes underlying heritable differences in reproductive seasonality between wild and domestic rabbits.

Carneiro M, Piorno V, Rubin CJ, ..., Alves PC, Andersson L

Anim. Genet. 46 (4) 418-425 [2015-08-00; online 2015-05-22]

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CAR T-Cell Therapy: The Role of Physical Barriers and Immunosuppression in Lymphoma.

Enblad G, Karlsson H, Loskog AS

Hum. Gene Ther. 26 (8) 498-505 [2015-08-00; online 2015-08-01]

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Bisphosphonate-functionalized hyaluronic acid showing selective affinity for osteoclasts as a potential treatment for osteoporosis.

Kootala S, Ossipov D, van den Beucken JJ, Leeuwenburgh S, Hilborn J

Biomater Sci 3 (8) 1197-1207 [2015-08-00; online 2015-06-24]

Affiliated researcher

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5 year mortality predictors in 498 103 UK Biobank participants: a prospective population-based study

Ganna A, Ingelsson E

The Lancet 386 (9993) 533-540 [2015-08-00; online 2015-08-00]

Affiliated researcher

PubMed DOI Crossref

HaploPOP: a software that improves population assignment by combining markers into haplotypes.

Duforet-Frebourg N, Gattepaille LM, Blum MG, Jakobsson M

BMC Bioinformatics 16 (-) 242 [2015-07-31; online 2015-07-31]

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The novel NADPH oxidase 4 inhibitor GLX351322 counteracts glucose intolerance in high-fat diet-treated C57BL/6 mice.

Anvari E, Wikström P, Walum E, Welsh N

Free Radic. Res. 49 (11) 1308-1318 [2015-07-30; online 2015-07-30]

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OCDB: a database collecting genes, miRNAs and drugs for obsessive-compulsive disorder.

Privitera AP, Distefano R, Wefer HA, ..., Pulvirenti A, Giugno R

Database (Oxford) 2015 (-) bav069 [2015-07-30; online 2015-07-30]

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PubMed DOI Crossref

Genome-Wide Analyses Suggest Mechanisms Involving Early B-Cell Development in Canine IgA Deficiency.

Olsson M, Tengvall K, Frankowiack M, ..., Hammarström L, Lindblad-Toh K

PLoS ONE 10 (7) e0133844 [2015-07-30; online 2015-07-30]

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Global SUMOylation on active chromatin is an acute heat stress response restricting transcription.

Niskanen EA, Malinen M, Sutinen P, ..., Sistonen L, Palvimo JJ

Genome Biol. 16 (1) 153 [2015-07-28; online 2015-07-28]

Anniina Vihervaara SciLifeLab Fellow

PubMed DOI Crossref

Production, Purification, and Characterization of ¹⁵N-Labeled DNA Repair Proteins as Internal Standards for Mass Spectrometric Measurements.

Reddy PT, Jaruga P, Nelson BC, ..., Helleday T, Dizdaroglu M

Meth. Enzymol. 566 (-) 305-332 [2015-07-26; online 2015-07-26]

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MEG3 long noncoding RNA regulates the TGF-β pathway genes through formation of RNA-DNA triplex structures.

Mondal T, Subhash S, Vaid R, ..., Gorab E, Kanduri C

Nat Commun 6 (-) 7743 [2015-07-24; online 2015-07-24]

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Directional dominance on stature and cognition in diverse human populations.

Joshi PK, Esko T, Mattsson H, ..., Polašek O, Wilson JF

Nature 523 (7561) 459-462 [2015-07-23; online 2015-07-01]

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DNA rendering of polyhedral meshes at the nanoscale.

Benson E, Mohammed A, Gardell J, ..., Orponen P, Högberg B

Nature 523 (7561) 441-444 [2015-07-23; online 2015-07-24]

Erik Benson SciLifeLab Fellow

PubMed DOI Crossref

Compaction of rolling circle amplification products increases signal integrity and signal-to-noise ratio.

Clausson CM, Arngården L, Ishaq O, ..., Wählby C, Söderberg O

Sci Rep 5 (-) 12317 [2015-07-23; online 2015-07-23]

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G protein-gated inwardly rectifying potassium channel subunits 1 and 2 are down-regulated in rat dorsal root ganglion neurons and spinal cord after peripheral axotomy.

Lyu C, Mulder J, Barde S, ..., Fried K, Shi TJ

Mol Pain 11 (-) 44 [2015-07-22; online 2015-07-22]

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Cooperative Electrostatic Interactions Drive Functional Evolution in the Alkaline Phosphatase Superfamily.

Barrozo A, Duarte F, Bauer P, Carvalho AT, Kamerlin SC

J. Am. Chem. Soc. 137 (28) 9061-9076 [2015-07-22; online 2015-07-10]

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lobChIP: from cells to sequencing ready ChIP libraries in a single day.

Wallerman O, Nord H, Bysani M, Borghini L, Wadelius C

Epigenetics Chromatin 8 (-) 25 [2015-07-21; online 2015-07-21]

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CIN85 modulates TGFβ signaling by promoting the presentation of TGFβ receptors on the cell surface.

Yakymovych I, Yakymovych M, Zang G, ..., Landström M, Heldin CH

J. Cell Biol. 210 (2) 319-332 [2015-07-20; online 2015-07-13]

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Mitochondrial ribosome assembly in health and disease

De Silva D, Tu YT, Amunts A, Fontanesi F, Barrientos A

Cell Cycle 14 (14) 2226-2250 [2015-07-18; online 2015-06-00]

Alexey Amunts SciLifeLab Fellow

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Epigenome data release: a participant-centered approach to privacy protection.

Dyke SO, Cheung WA, Joly Y, ..., Walter J, Pastinen T

Genome Biol. 16 (-) 142 [2015-07-17; online 2015-07-17]

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Promoter-level expression clustering identifies time development of transcriptional regulatory cascades initiated by ErbB receptors in breast cancer cells.

Mina M, Magi S, Jurman G, ..., Okada-Hatakeyama M, Furlanello C

Sci Rep 5 (-) 11999 [2015-07-16; online 2015-07-16]

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Logical transformation of genome-scale metabolic models for gene level applications and analysis.

Zhang C, Ji B, Mardinoglu A, Nielsen J, Hua Q

Bioinformatics 31 (14) 2324-2331 [2015-07-15; online 2015-03-02]

Adil Mardinoglu SciLifeLab Fellow

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SAXS-Guided Metadynamics.

Kimanius D, Pettersson I, Schluckebier G, Lindahl E, Andersson M

J Chem Theory Comput 11 (7) 3491-3498 [2015-07-14; online 2015-11-18]

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Properties of Organic Liquids when Simulated with Long-Range Lennard-Jones Interactions.

Fischer NM, van Maaren PJ, Ditz JC, Yildirim A, van der Spoel D

J Chem Theory Comput 11 (7) 2938-2944 [2015-07-14; online 2015-06-02]

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Incidence of Diabetes Mellitus in Insured Swedish Cats in Relation to Age, Breed and Sex.

Öhlund M, Fall T, Ström Holst B, ..., Bonnett B, Egenvall A

J. Vet. Intern. Med. 29 (5) 1342-1347 [2015-07-14; online 2015-07-14]

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Differential Expression Analysis by RNA-Seq Reveals Perturbations in the Platelet mRNA Transcriptome Triggered by Pathogen Reduction Systems.

Osman A, Hitzler WE, Ameur A, Provost P

PLoS ONE 10 (7) e0133070 [2015-07-14; online 2015-07-14]

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Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat.

Babbitt PC, Bagos PG, Bairoch A, ..., Vastermark A, Vriend G

Database (Oxford) 2015 (-) bav063 [2015-07-11; online 2015-07-11]

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Inhibition of Ebola virus glycoprotein-mediated cytotoxicity by targeting its transmembrane domain and cholesterol.

Hacke M, Björkholm P, Hellwig A, ..., Wieland F, Ernst AM

Nat Commun 6 (-) 7688 [2015-07-09; online 2015-07-09]

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The SWI/SNF Subunit INI1 Contains an N-Terminal Winged Helix DNA Binding Domain that Is a Target for Mutations in Schwannomatosis.

Allen MD, Freund SM, Zinzalla G, Bycroft M

Structure 23 (7) 1344-1349 [2015-07-07; online 2015-06-11]

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Formation of Silver Nanostructures by Rolling Circle Amplification Using Boranephosphonate-Modified Nucleotides.

Russell C, Roy S, Ganguly S, ..., Caruthers MH, Nilsson M

Anal. Chem. 87 (13) 6660-6666 [2015-07-07; online 2015-06-22]

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Chromosomal copy number variation reveals differential levels of genomic plasticity in distinct Trypanosoma cruzi strains.

Reis-Cunha JL, Rodrigues-Luiz GF, Valdivia HO, ..., Vasconcelos AT, Bartholomeu DC

BMC Genomics 16 (-) 499 [2015-07-04; online 2015-07-04]

Affiliated researcher

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Small RNAs in bacteria and archaea: who they are, what they do, and how they do it.

Wagner EGH, Romby P

Adv. Genet. 90 (-) 133-208 [2015-07-03; online 2015-07-03]

Affiliated researcher

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Nutritional Control of DNA Replication Initiation through the Proteolysis and Regulated Translation of DnaA

Leslie DJ, Heinen C, Schramm FD, ..., Laub MT, Jonas K

PLoS Genet 11 (7) e1005342 [2015-07-02; online 2015-07-02]

Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

Discovery of GPCR Ligands by Molecular Docking Screening: Novel Opportunities Provided by Crystal Structures.

Rodríguez D, Ranganathan A, Carlsson J

CTMC 15 (24) 2484-2503 [2015-07-02; online 2015-07-02]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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A Synergistic Interaction between Chk1- and MK2 Inhibitors in KRAS-Mutant Cancer.

Dietlein F, Kalb B, Jokic M, ..., Thomas RK, Reinhardt HC

Cell 162 (1) 146-159 [2015-07-02; online 2015-07-04]

Affiliated researcher

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The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides.

Tsirigos KD, Peters C, Shu N, Käll L, Elofsson A

Nucleic Acids Res. 43 (W1) W401-W407 [2015-07-01; online 2015-05-12]

Affiliated researcher

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Neutrophil Extracellular Traps Accumulate in Peripheral Blood Vessels and Compromise Organ Function in Tumor-Bearing Animals.

Cedervall J, Zhang Y, Huang H, ..., Dimberg A, Olsson AK

Cancer Res. 75 (13) 2653-2662 [2015-07-01; online 2015-06-12]

Affiliated researcher

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Critical Role of Histone Turnover in Neuronal Transcription and Plasticity.

Maze I, Wenderski W, Noh KM, ..., Molina H, Allis CD

Neuron 87 (1) 77-94 [2015-07-01; online 2015-07-04]

SciLifeLab Fellow Simon Elsässer

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Using Genetic Variants to Assess the Relationship Between Circulating Lipids and Type 2 Diabetes.

Fall T, Xie W, Poon W, ..., Frayling TM, Ingelsson E

Diabetes 64 (7) 2676-2684 [2015-07-00; online 2015-05-06]

Affiliated researcher

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Toward Rare Blood Cell Preservation for RNA Sequencing.

Vickovic S, Ahmadian A, Lewensohn R, Lundeberg J

J Mol Diagn 17 (4) 352-359 [2015-07-00; online 2015-05-16]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

PubMed DOI Crossref

The Nuclear PolyA-Binding Protein Nab2p Is Essential for mRNA Production

Schmid M, Olszewski P, Pelechano V, ..., Steinmetz LM, Jensen TH

Cell Reports 12 (1) 128-139 [2015-07-00; online 2015-07-00]

SciLifeLab Fellow Vicent Pelechano

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Rediscovery rate estimation for assessing the validation of significant findings in high-throughput studies.

Ganna A, Lee D, Ingelsson E, Pawitan Y

Brief. Bioinformatics 16 (4) 563-575 [2015-07-00; online 2014-09-24]

Affiliated researcher

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Quality of life in patients with venous thromboembolism and atrial fibrillation treated with coumarin anticoagulants.

Marvig CL, Verhoef TI, de Boer A, ..., Maitland-van der Zee AH, EU-PACT consortium

Thromb. Res. 136 (1) 69-75 [2015-07-00; online 2015-04-25]

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Polymorphisms in DCDC2 and S100B associate with developmental dyslexia.

Matsson H, Huss M, Persson H, ..., Peyrard-Janvid M, Kere J

J. Hum. Genet. 60 (7) 399-401 [2015-07-00; online 2015-04-16]

Affiliated researcher

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Neuroproteomics tools in clinical practice.

Shevchenko G, Konzer A, Musunuri S, Bergquist J

Biochim. Biophys. Acta 1854 (7) 705-717 [2015-07-00; online 2015-02-10]

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Metabolite profiling of microfluidic cell culture conditions for droplet based screening.

Bjork SM, Sjostrom SL, Andersson-Svahn H, Joensson HN

Biomicrofluidics 9 (4) 044128 [2015-07-00; online 2015-08-31]

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Marginally hydrophobic transmembrane α-helices shaping membrane protein folding.

De Marothy MT, Elofsson A

Protein Sci. 24 (7) 1057-1074 [2015-07-00; online 2015-05-30]

Affiliated researcher

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Insertion of exogenous epitopes in the E3-19K of oncolytic adenoviruses to enhance TAP-independent presentation and immunogenicity.

Rodríguez-García A, Svensson E, Gil-Hoyos R, ..., Loskog AS, Alemany R

Gene Ther. 22 (7) 596-601 [2015-07-00; online 2015-05-21]

Affiliated researcher

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High-throughput gene targeting and phenotyping in zebrafish using CRISPR/Cas9.

Varshney GK, Pei W, LaFave MC, ..., Ledin J, Burgess SM

Genome Res. 25 (7) 1030-1042 [2015-07-00; online 2015-06-05]

Affiliated researcher

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Genome-wide association study of plasma levels of polychlorinated biphenyls disclose an association with the CYP2B6 gene in a population-based sample.

Ng E, Salihovic S, Lind PM, ..., Morris AP, Lind L

Environ. Res. 140 (-) 95-101 [2015-07-00; online 2015-04-02]

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Endothelial cell spheroids as a versatile tool to study angiogenesis in vitro.

Heiss M, Hellström M, Kalén M, ..., Augustin HG, Korff T

FASEB J. 29 (7) 3076-3084 [2015-07-00; online 2015-04-09]

Affiliated researcher

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Disentangling seasonal bacterioplankton population dynamics by high-frequency sampling.

Lindh MV, Sjöstedt J, Andersson AF, ..., Legrand C, Pinhassi J

Environ. Microbiol. 17 (7) 2459-2476 [2015-07-00; online 2015-01-27]

Affiliated researcher DDLS Fellow Luisa Hugerth

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Discovery and Fine-Mapping of Glycaemic and Obesity-Related Trait Loci Using High-Density Imputation.

Horikoshi M, Mӓgi R, van de Bunt M, ..., Morris AP, ENGAGE Consortium

PLoS Genet 11 (7) e1005230 [2015-07-00; online 2015-07-01]

Affiliated researcher

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Comparative sequence analysis suggests a conserved gating mechanism for TRP channels

Palovcak E, Delemotte L, Klein ML, Carnevale V

J Gen Physiol 146 (1) 37-50 [2015-07-00; online 2015-06-15]

Lucie Delemotte SciLifeLab Fellow

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Chondroitin Sulfate-Coated DNA-Nanoplexes Enhance Transfection Efficiency by Controlling Plasmid Release from Endosomes: A New Insight into Modulating Nonviral Gene Transfection

Yan H, Oommen OP, Yu D, ..., Qian H, Varghese OP

Adv. Funct. Mater. 25 (25) 3907-3915 [2015-07-00; online 2015-05-18]

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BBMRI-ERIC as a resource for pharmaceutical and life science industries: the development of biobank-based Expert Centres.

van Ommen GJ, Törnwall O, Bréchot C, ..., Litton JE, Zatloukal K

Eur. J. Hum. Genet. 23 (7) 893-900 [2015-07-00; online 2014-11-19]

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Structural Basis for the Specificity of Human NUDT16 and Its Regulation by Inosine Monophosphate.

Trésaugues L, Lundbäck T, Welin M, ..., Gräslund S, Nordlund P

PLoS ONE 10 (6) e0131507 [2015-06-29; online 2015-06-29]

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High BRAF Mutation Frequency and Marked Survival Differences in Subgroups According to KRAS/BRAF Mutation Status and Tumor Tissue Availability in a Prospective Population-Based Metastatic Colorectal Cancer Cohort.

Sorbye H, Dragomir A, Sundström M, ..., Qvortrup C, Glimelius B

PLoS ONE 10 (6) e0131046 [2015-06-29; online 2015-06-29]

Affiliated researcher

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A complete map of potential pathogenicity markers of avian influenza virus subtype H5 predicted from 11 expressed proteins.

Khaliq Z, Leijon M, Belák S, Komorowski J

BMC Microbiol. 15 (-) 128 [2015-06-26; online 2015-06-26]

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Αlpha 2a-Adrenoceptor Gene Expression and Early Life Stress-Mediated Propensity to Alcohol Drinking in Outbred Rats.

Comasco E, Todkar A, Granholm L, Nilsson KW, Nylander I

Int J Environ Res Public Health 12 (7) 7154-7171 [2015-06-25; online 2015-06-25]

Erika Comasco SciLifeLab Fellow

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The human cardiac and skeletal muscle proteomes defined by transcriptomics and antibody-based profiling.

Lindskog C, Linné J, Fagerberg L, ..., Pontén F, Uhlén M

BMC Genomics 16 (1) 475 [2015-06-25; online 2015-06-25]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Gene expression analysis of skin grafts and cultured keratinocytes using synthetic RNA normalization reveals insights into differentiation and growth control.

Katayama S, Skoog T, Jouhilahti EM, ..., Kankuri E, Kere J

BMC Genomics 16 (-) 476 [2015-06-25; online 2015-06-25]

Affiliated researcher

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Transcriptional modulator ZBED6 affects cell cycle and growth of human colorectal cancer cells.

Akhtar Ali M, Younis S, Wallerman O, ..., Andersson L, Sjöblom T

Proc. Natl. Acad. Sci. U.S.A. 112 (25) 7743-7748 [2015-06-23; online 2015-06-08]

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Linked genetic variants on chromosome 10 control ear morphology and body mass among dog breeds.

Webster MT, Kamgari N, Perloski M, ..., Pielberg G, Lindblad-Toh K

BMC Genomics 16 (-) 474 [2015-06-23; online 2015-06-23]

Affiliated researcher

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Transforming growth factor β and bone morphogenetic protein actions in brain tumors.

Caja L, Bellomo C, Moustakas A

FEBS Lett. 589 (14) 1588-1597 [2015-06-22; online 2015-05-06]

Affiliated researcher

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Force Field Benchmark of Organic Liquids. 2. Gibbs Energy of Solvation.

Zhang J, Tuguldur B, van der Spoel D

J Chem Inf Model 55 (6) 1192-1201 [2015-06-22; online 2015-06-03]

Affiliated researcher

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Confrontation of fibroblasts with cancer cells in vitro: gene network analysis of transcriptome changes and differential capacity to inhibit tumor growth.

Alexeyenko A, Alkasalias T, Pavlova T, ..., Guven H, Klein G

J. Exp. Clin. Cancer Res. 34 (-) 62 [2015-06-18; online 2015-06-18]

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Transglutaminase 4 as a prostate autoantigen in male subfertility.

Landegren N, Sharon D, Shum AK, ..., Snyder M, Kämpe O

Sci Transl Med 7 (292) 292ra101 [2015-06-17; online 2015-06-19]

Affiliated researcher

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Elevated Serum GAD65 and GAD65-GADA Immune Complexes in Stiff Person Syndrome.

Gu Urban GJ, Friedman M, Ren P, ..., Landegren U, Kamali-Moghaddam M

Sci Rep 5 (-) 11196 [2015-06-16; online 2015-06-16]

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Mobility-based prediction of hydration structures of protein surfaces.

Jeszenői N, Horváth I, Bálint M, van der Spoel D, Hetényi C

Bioinformatics 31 (12) 1959-1965 [2015-06-15; online 2015-02-13]

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IFN-α production by plasmacytoid dendritic cell associations with polymorphisms in gene loci related to autoimmune and inflammatory diseases.

Berggren O, Alexsson A, Morris DL, ..., Rönnblom L, Eloranta ML

Hum. Mol. Genet. 24 (12) 3571-3581 [2015-06-15; online 2015-03-16]

Affiliated researcher

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Defining the Human Brain Proteome Using Transcriptomics and Antibody-Based Profiling with a Focus on the Cerebral Cortex.

Sjöstedt E, Fagerberg L, Hallström BM, ..., Uhlén M, Mulder J

PLoS ONE 10 (6) e0130028 [2015-06-15; online 2015-06-15]

Affiliated researcher

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Contribution of common non-synonymous variants in PCSK1 to body mass index variation and risk of obesity: a systematic review and meta-analysis with evidence from up to 331 175 individuals.

Nead KT, Li A, Wehner MR, ..., Anand SS, Meyre D

Hum. Mol. Genet. 24 (12) 3582-3594 [2015-06-15; online 2015-03-17]

Affiliated researcher

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Two steps forward, one step back: successes and failures in structure-based discovery of GPCR ligands.

Carlsson J

Springerplus 4 (Suppl 1) L5 [2015-06-12; online 2015-06-12]

Jens Carlsson SciLifeLab Fellow

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Proximity-dependent initiation of hybridization chain reaction.

Koos B, Cane G, Grannas K, ..., Kamali-Moghaddam M, Söderberg O

Nat Commun 6 (-) 7294 [2015-06-12; online 2015-06-12]

Affiliated researcher

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Microglial Heparan Sulfate Proteoglycans Facilitate the Cluster-of-Differentiation 14 (CD14)/Toll-like Receptor 4 (TLR4)-Dependent Inflammatory Response.

O'Callaghan P, Li JP, Lannfelt L, Lindahl U, Zhang X

J. Biol. Chem. 290 (24) 14904-14914 [2015-06-12; online 2015-04-13]

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Histone H3.3 is required for endogenous retroviral element silencing in embryonic stem cells.

Elsässer SJ, Noh KM, Diaz N, Allis CD, Banaszynski LA

Nature 522 (7555) 240-244 [2015-06-11; online 2015-05-04]

Affiliated researcher SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Phasing of single DNA molecules by massively parallel barcoding.

Borgström E, Redin D, Lundin S, ..., Andersson AF, Ahmadian A

Nat Commun 6 (-) 7173 [2015-06-09; online 2015-06-09]

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Molecular simulation workflows as parallel algorithms: the execution engine of Copernicus, a distributed high-performance computing platform.

Pronk S, Pouya I, Lundborg M, ..., Kasson PM, Lindahl E

J Chem Theory Comput 11 (6) 2600-2608 [2015-06-09; online 2015-11-18]

Affiliated researcher

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A coarse-grained simulation study of the structures, energetics, and dynamics of linear and circular DNA with its ions.

Naômé A, Laaksonen A, Vercauteren DP

J Chem Theory Comput 11 (6) 2813-2826 [2015-06-09; online 2015-05-14]

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The mammalian alcohol dehydrogenase genome shows several gene duplications and gene losses resulting in a large set of different enzymes including pseudoenzymes.

Östberg LJ, Persson B, Höög JO

Chem. Biol. Interact. 234 (-) 80-84 [2015-06-05; online 2014-12-03]

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Next-generation pathology--surveillance of tumor microecology.

Koos B, Kamali-Moghaddam M, David L, ..., Wählby C, Söderberg O

J. Mol. Biol. 427 (11) 2013-2022 [2015-06-05; online 2015-02-26]

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Alcohol dehydrogenase, SDR and MDR structural stages, present update and altered era.

Jörnvall H, Landreh M, Östberg LJ

Chem. Biol. Interact. 234 (-) 75-79 [2015-06-05; online 2014-10-29]

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Excessive antigen reactivity may underlie the clinical aggressiveness of chronic lymphocytic leukemia stereotyped subset #8.

Gounari M, Ntoufa S, Apollonio B, ..., Stamatopoulos K, Ghia P

Blood 125 (23) 3580-3587 [2015-06-04; online 2015-04-21]

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Dominant Red Coat Color in Holstein Cattle Is Associated with a Missense Mutation in the Coatomer Protein Complex, Subunit Alpha (COPA) Gene.

Dorshorst B, Henegar C, Liao X, ..., Barsh GS, Andersson L

PLoS ONE 10 (6) e0128969 [2015-06-04; online 2015-06-04]

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A quantitative assessment of the Hadoop framework for analyzing massively parallel DNA sequencing data.

Siretskiy A, Sundqvist T, Voznesenskiy M, Spjuth O

Gigascience 4 (-) 26 [2015-06-04; online 2015-06-04]

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Single-cell polyadenylation site mapping reveals 3' isoform choice variability.

Velten L, Anders S, Pekowska A, ..., Pelechano V, Steinmetz LM

Mol Syst Biol 11 (6) 812 [2015-06-03; online 2015-06-03]

SciLifeLab Fellow Vicent Pelechano

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Processing of protein ADP-ribosylation by Nudix hydrolases.

Palazzo L, Thomas B, Jemth AS, ..., Helleday T, Ahel I

Biochem. J. 468 (2) 293-301 [2015-06-01; online 2015-03-20]

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Functional loss of IκBε leads to NF-κB deregulation in aggressive chronic lymphocytic leukemia.

Mansouri L, Sutton LA, Ljungström V, ..., Nilsson M, Rosenquist R

J. Exp. Med. 212 (6) 833-843 [2015-06-01; online 2015-05-18]

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Widespread Co-translational RNA Decay Reveals Ribosome Dynamics

Pelechano V, Wei W, Steinmetz LM

Cell 161 (6) 1400-1412 [2015-06-00; online 2015-06-00]

SciLifeLab Fellow Vicent Pelechano

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Tumor vessel up-regulation of INSR revealed by single-cell expression analysis of the tyrosine kinome and phosphatome in human cancers.

Kiflemariam S, Ljungström V, Pontén F, Sjöblom T

Am. J. Pathol. 185 (6) 1600-1609 [2015-06-00; online 2015-04-10]

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Transforming Growth Factor β Signaling in Colorectal Cancer Cells With Microsatellite Instability Despite Biallelic Mutations in TGFBR2.

de Miranda NF, van Dinther M, van den Akker BE, ..., ten Dijke P, Morreau H

Gastroenterology 148 (7) 1427-37.e8 [2015-06-00; online 2015-02-28]

Affiliated researcher

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The impact of low-frequency and rare variants on lipid levels.

Surakka I, Horikoshi M, Mägi R, ..., Ripatti S, ENGAGE Consortium

Nat. Genet. 47 (6) 589-597 [2015-06-00; online 2015-05-11]

Affiliated researcher

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The fat cell epigenetic signature in post-obese women is characterized by global hypomethylation and differential DNA methylation of adipogenesis genes.

Dahlman I, Sinha I, Gao H, ..., Dahlman-Wright K, Arner P

Int J Obes (Lond) 39 (6) 910-919 [2015-06-00; online 2015-03-18]

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Significance of archaeal nitrification in hypoxic waters of the Baltic Sea.

Berg C, Vandieken V, Thamdrup B, Jürgens K

ISME J 9 (6) 1319-1332 [2015-06-00; online 2014-11-25]

Affiliated researcher

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Optimization and Evaluation of 5-Styryl-Oxathiazol-2-one Mycobacterium tuberculosis Proteasome Inhibitors as Potential Antitubercular Agents.

Russo F, Gising J, Åkerbladh L, ..., Karlén A, Larhed M

ChemistryOpen 4 (3) 342-362 [2015-06-00; online 2015-04-17]

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Non-reciprocal Interspecies Hybridization Barriers in the Capsella Genus Are Established in the Endosperm.

Rebernig CA, Lafon-Placette C, Hatorangan MR, Slotte T, Köhler C

PLoS Genet 11 (6) e1005295 [2015-06-00; online 2015-06-18]

SciLifeLab Fellow Tanja Slotte

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NLRC4 Inflammasome Is an Important Regulator of Interleukin-18 Levels in Patients With Acute Coronary Syndromes: Genome-Wide Association Study in the PLATelet inhibition and patient Outcomes Trial (PLATO).

Johansson Å, Eriksson N, Becker RC, ..., Siegbahn A, PLATO Investigators

Circ Cardiovasc Genet 8 (3) 498-506 [2015-06-00; online 2015-03-06]

Affiliated researcher

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Multiple Changes of Gene Expression and Function Reveal Genomic and Phenotypic Complexity in SLE-like Disease.

Wilbe M, Kozyrev SV, Farias FH, ..., Hansson-Hamlin H, Lindblad-Toh K

PLoS Genet 11 (6) e1005248 [2015-06-00; online 2015-06-09]

Affiliated researcher

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Molecular evidence for antigen drive in the natural history of mantle cell lymphoma.

Xochelli A, Sutton LA, Agathangelidis A, ..., Belessi C, Stamatopoulos K

Am. J. Pathol. 185 (6) 1740-1748 [2015-06-00; online 2015-04-02]

Affiliated researcher

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Microbial metagenomics in the Baltic Sea: Recent advancements and prospects for environmental monitoring.

Ininbergs K, Bergman B, Larsson J, Ekman M

Ambio 44 Suppl 3 (-) 439-450 [2015-06-00; online 2015-05-30]

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DOI Crossref

MATHEMATICAL MODELING OF BEHÇET'S DISEASE: A DYNAMICAL SYSTEMS APPROACH

ERDEM C, BOZKURT Y, ERMAN B, GÜL A, DEMIR A

J. Biol. Syst. 23 (02) 231-257 [2015-06-00; online 2015-05-28]

Cemal Erdem DDLS Fellow

PubMed DOI Crossref

Loss of ASRGL1 expression is an independent biomarker for disease-specific survival in endometrioid endometrial carcinoma.

Edqvist PH, Huvila J, Forsström B, ..., Pontén F, Auranen A

Gynecol. Oncol. 137 (3) 529-537 [2015-06-00; online 2015-04-07]

Affiliated researcher

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Human adaptation to arsenic-rich environments.

Schlebusch CM, Gattepaille LM, Engström K, ..., Jakobsson M, Broberg K

Mol. Biol. Evol. 32 (6) 1544-1555 [2015-06-00; online 2015-03-03]

Affiliated researcher

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Exome sequencing of contralateral breast cancer identifies metastatic disease.

Klevebring D, Lindberg J, Rockberg J, ..., Sandberg M, Czene K

Breast Cancer Res. Treat. 151 (2) 319-324 [2015-06-00; online 2015-04-29]

Affiliated researcher

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Effect of host plant and immune challenge on the levels of chemosensory and odorant-binding proteins in caterpillar salivary glands.

Celorio-Mancera Mde L, Ytterberg AJ, Rutishauser D, Janz N, Zubarev RA

Insect Biochem. Mol. Biol. 61 (-) 34-45 [2015-06-00; online 2015-04-29]

Affiliated researcher

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Dendritic cell regulation of NK-cell responses involves lymphotoxin-α, IL-12, and TGF-β.

Sarhan D, Palma M, Mao Y, ..., Österborg A, Lundqvist A

Eur. J. Immunol. 45 (6) 1783-1793 [2015-06-00; online 2015-04-17]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

CK1δ restrains lipin-1 induction, lipid droplet formation and cell proliferation under hypoxia by reducing HIF-1α/ARNT complex formation.

Kourti M, Ikonomou G, Giakoumakis NN, ..., Simos G, Mylonis I

Cell. Signal. 27 (6) 1129-1140 [2015-06-00; online 2015-03-03]

Affiliated researcher

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Antibiotic resistance genes in the environment: prioritizing risks.

Bengtsson-Palme J, Larsson DG

Nat. Rev. Microbiol. 13 (6) 396 [2015-06-00; online 2015-04-27]

DDLS Fellow Johan Bengtsson-Palme

DOI Crossref

A chemoenzymatic approach toward the preparation of site-specific antibody–drug conjugates

Cai X, Janda KD

Tetrahedron Letters 56 (23) 3172-3175 [2015-06-00; online 2015-06-00]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Characterization of functional methylomes by next-generation capture sequencing identifies novel disease-associated variants.

Allum F, Shao X, Guénard F, ..., Pastinen T, Grundberg E

Nat Commun 6 (-) 7211 [2015-05-29; online 2015-05-29]

Affiliated researcher

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Variants in ELL2 influencing immunoglobulin levels associate with multiple myeloma.

Swaminathan B, Thorleifsson G, Jöud M, ..., Thorsteinsdóttir U, Nilsson B

Nat Commun 6 (1) 7213 [2015-05-26; online 2015-05-26]

Affiliated researcher

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Purification of functionalized DNA origami nanostructures.

Shaw A, Benson E, Högberg B

ACS Nano 9 (5) 4968-4975 [2015-05-26; online 2015-05-12]

Erik Benson SciLifeLab Fellow

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Estrogen Receptor β2 Induces Hypoxia Signature of Gene Expression by Stabilizing HIF-1α in Prostate Cancer.

Dey P, Velazquez-Villegas LA, Faria M, ..., Gustafsson JÅ, Ström AM

PLoS ONE 10 (5) e0128239 [2015-05-26; online 2015-05-26]

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Phenotypic variability in a seven-generation Swedish family segregating autosomal dominant hearing impairment due to a novel EYA4 frameshift mutation.

Frykholm C, Klar J, Arnesson H, ..., Tranebjærg L, Rendtorff ND

Gene 563 (1) 10-16 [2015-05-25; online 2015-02-11]

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Carvalho AT, O'Donoghue AC, Hodgson DR, Kamerlin SC

Org. Biomol. Chem. 13 (19) 5391-5398 [2015-05-21; online 2015-03-24]

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Cationic PTD/CPP-mediated macromolecular delivery: charging into the cell.

Lönn P, Dowdy SF

Expert Opin Drug Deliv 12 (10) 1627-1636 [2015-05-20; online 2015-05-20]

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Metabolic dependencies drive species co-occurrence in diverse microbial communities

Zelezniak A, Andrejev S, Ponomarova O, ..., Bork P, Patil KR

Proceedings of the National Academy of Sciences 112 (20) 6449-6454 [2015-05-19; online 2015-05-04]

Aleksej Zelezniak SciLifeLab Fellow

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Spectral imaging to measure heterogeneity in membrane lipid packing.

Sezgin E, Waithe D, Bernardino de la Serna J, Eggeling C

Chemphyschem 16 (7) 1387-1394 [2015-05-18; online 2015-03-05]

Erdinc Sezgin SciLifeLab Fellow

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CGGBP1 mitigates cytosine methylation at repetitive DNA sequences.

Agarwal P, Collier P, Fritz MH, ..., Westermark B, Singh U

BMC Genomics 16 (-) 390 [2015-05-16; online 2015-05-16]

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Obesity, metabolic syndrome and risk of atrial fibrillation: a Swedish, prospective cohort study.

Nyström PK, Carlsson AC, Leander K, ..., Hellenius ML, Gigante B

PLoS ONE 10 (5) e0127111 [2015-05-15; online 2015-05-15]

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Digital quantification of rolling circle amplified single DNA molecules in a resistive pulse sensing nanopore.

Kühnemund M, Nilsson M

Biosens Bioelectron 67 (-) 11-17 [2015-05-15; online 2014-06-24]

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Differential protein expression profiles of cyst fluid from papillary thyroid carcinoma and benign thyroid lesions.

Dinets A, Pernemalm M, Kjellin H, ..., Lehtiö J, Höög A

PLoS ONE 10 (5) e0126472 [2015-05-15; online 2015-05-15]

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Complex archaea that bridge the gap between prokaryotes and eukaryotes.

Spang A, Saw JH, Jørgensen SL, ..., Guy L, Ettema TJG

Nature 521 (7551) 173-179 [2015-05-14; online 2015-05-06]

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The Shepherds' Tale: A Genome-Wide Study across 9 Dog Breeds Implicates Two Loci in the Regulation of Fructosamine Serum Concentration in Belgian Shepherds.

Forsberg SK, Kierczak M, Ljungvall I, ..., Lindblad-Toh K, Höglund K

PLoS ONE 10 (5) e0123173 [2015-05-13; online 2015-05-13]

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Proteome- and transcriptome-driven reconstruction of the human myocyte metabolic network and its use for identification of markers for diabetes.

Väremo L, Scheele C, Broholm C, ..., Pedersen BK, Nielsen J

Cell Reports 11 (6) 921-933 [2015-05-12; online 2015-04-30]

Adil Mardinoglu SciLifeLab Fellow

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Probe Region Expression Estimation for RNA-Seq Data for Improved Microarray Comparability.

Uziela K, Honkela A

PLoS ONE 10 (5) e0126545 [2015-05-12; online 2015-05-12]

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Vinylic MIDA Boronates: New Building Blocks for the Synthesis of Aza-Heterocycles.

Llona-Minguez S, Desroses M, Ghassemian A, ..., Scobie M, Helleday T

Chemistry 21 (20) 7394-7398 [2015-05-11; online 2015-03-25]

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The T cell receptor resides in ordered plasma membrane nanodomains that aggregate upon patching of the receptor.

Dinic J, Riehl A, Adler J, Parmryd I

Sci Rep 5 (-) 10082 [2015-05-08; online 2015-05-08]

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Human genomics. Effect of predicted protein-truncating genetic variants on the human transcriptome.

Rivas MA, Pirinen M, Conrad DF, ..., Lappalainen T, MacArthur DG

Science (New York, N.Y.) 348 (6235) 666-669 [2015-05-08; online 2015-05-09]

Marc Friedländer SciLifeLab Fellow

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Functionally Structured Genomes in Lactobacillus kunkeei Colonizing the Honey Crop and Food Products of Honeybees and Stingless Bees.

Tamarit D, Ellegaard KM, Wikander J, ..., Vásquez A, Andersson SG

Genome Biol Evol 7 (6) 1455-1473 [2015-05-06; online 2015-05-06]

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Deconvoluting Protein (Un)folding Structural Ensembles Using X-Ray Scattering, Nuclear Magnetic Resonance Spectroscopy and Molecular Dynamics Simulation.

Nasedkin A, Marcellini M, Religa TL, ..., van der Spoel D, Davidsson J

PLoS ONE 10 (5) e0125662 [2015-05-06; online 2015-05-06]

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Somatostatin Analogs Treated Small Intestinal Neuroendocrine Tumor Patients Circulating MicroRNAs.

Li SC, Khan M, Caplin M, ..., Öberg K, Giandomenico V

PLoS ONE 10 (5) e0125553 [2015-05-05; online 2015-05-05]

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Intestinal dysbiosis in children with short bowel syndrome is associated with impaired outcome.

Engstrand Lilja H, Wefer H, Nyström N, Finkel Y, Engstrand L

Microbiome 3 (-) 18 [2015-05-04; online 2015-05-04]

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RhoD is a Golgi component with a role in anterograde protein transport from the ER to the plasma membrane.

Blom M, Reis K, Nehru V, ..., Gad AK, Aspenström P

Exp. Cell Res. 333 (2) 208-219 [2015-05-01; online 2015-03-05]

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Coordinated expression of DNAM-1 and LFA-1 in educated NK cells.

Enqvist M, Ask EH, Forslund E, ..., Önfelt B, Malmberg KJ

J. Immunol. 194 (9) 4518-4527 [2015-05-01; online 2015-03-30]

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A systematic investigation of the contribution of genetic variation within the MHC region to HPV seropositivity.

Chen D, Gaborieau V, Zhao Y, ..., Brennan P, McKay JD

Hum. Mol. Genet. 24 (9) 2681-2688 [2015-05-01; online 2015-01-23]

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Ultrafiltration with size-exclusion liquid chromatography for high yield isolation of extracellular vesicles preserving intact biophysical and functional properties.

Nordin JZ, Lee Y, Vader P, ..., Wood MJ, El Andaloussi S

Nanomedicine 11 (4) 879-883 [2015-05-00; online 2015-02-04]

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Tracking the origin of metastatic prostate cancer.

Lindberg J, Kristiansen A, Wiklund P, Grönberg H, Egevad L

Eur. Urol. 67 (5) 819-822 [2015-05-00; online 2014-09-22]

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The tyrosine kinase inhibitors imatinib and dasatinib reduce myeloid suppressor cells and release effector lymphocyte responses.

Christiansson L, Söderlund S, Mangsbo S, ..., Loskog A, Olsson-Strömberg U

Mol. Cancer Ther. 14 (5) 1181-1191 [2015-05-00; online 2015-03-11]

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The effect of macrocyclic chelators on the targeting properties of the 68Ga-labeled gastrin releasing peptide receptor antagonist PEG2-RM26.

Varasteh Z, Mitran B, Rosenström U, ..., Tolmachev V, Orlova A

Nucl. Med. Biol. 42 (5) 446-454 [2015-05-00; online 2014-12-20]

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Recent advances in QM/MM free energy calculations using reference potentials.

Duarte F, Amrein BA, Blaha-Nelson D, Kamerlin SCL

Biochim. Biophys. Acta 1850 (5) 954-965 [2015-05-00; online 2014-07-16]

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Quantifying the impact of transporters on cellular drug permeability.

Matsson P, Fenu LA, Lundquist P, ..., Kansy M, Artursson P

Trends Pharmacol. Sci. 36 (5) 255-262 [2015-05-00; online 2015-03-19]

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Predictors of recurrent cellulitis in five years. Clinical risk factors and the role of PTX3 and CRP.

Karppelin M, Siljander T, Aittoniemi J, ..., Vuopio J, Syrjänen J

J. Infect. 70 (5) 467-473 [2015-05-00; online 2014-11-15]

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Mass-spectrometry-based characterization of oxidations in proteins.

Artemenko K, Mi J, Bergquist J

Free Radic. Res. 49 (5) 477-493 [2015-05-00; online 2015-04-17]

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ITS1: a DNA barcode better than ITS2 in eukaryotes?

Wang XC, Liu C, Huang L, ..., Cai D, Li JQ

Mol Ecol Resour 15 (3) 573-586 [2015-05-00; online 2014-09-24]

DDLS Fellow Johan Bengtsson-Palme

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Genomic Complexity Profiling Reveals That HORMAD1 Overexpression Contributes to Homologous Recombination Deficiency in Triple-Negative Breast Cancers.

Watkins J, Weekes D, Shah V, ..., Grigoriadis A, Tutt AN

Cancer Discov 5 (5) 488-505 [2015-05-00; online 2015-03-13]

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Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption.

Coffee and Caffeine Genetics Consortium , Cornelis MC, Byrne EM, ..., van Dam RM, Chasman DI

Mol. Psychiatry 20 (5) 647-656 [2015-05-00; online 2014-10-07]

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Evolutionary histories of transposable elements in the genome of the largest living marsupial carnivore, the Tasmanian devil.

Gallus S, Hallström BM, Kumar V, ..., Schumann GG, Nilsson MA

Mol. Biol. Evol. 32 (5) 1268-1283 [2015-05-00; online 2015-01-28]

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PubMed

Diagnostic urinary proteome profile for immunoglobulin a nephropathy.

Samavat S, Kalantari S, Nafar M, ..., Parvin M, Zubarev RA

Iran J Kidney Dis 9 (3) 239-248 [2015-05-00; online 2015-05-10]

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Cu(OAc)2-Catalysed Oxidative Dual C-H/N-H Activation of Terminal Alkynes andN-Deprotected Sulfonimidamides: An Easy Access toN-Alkynylated Sulfonimidamides

Nandi GC, Kota SR, Naicker T, ..., Kruger HG, Arvidsson PI

Eur. J. Org. Chem. 2015 (13) 2861-2867 [2015-05-00; online 2015-03-17]

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Computational modeling of the N-terminus of the human dopamine transporter and its interaction with PIP2 -containing membranes.

Khelashvili G, Doktorova M, Sahai MA, ..., Shi L, Weinstein H

Proteins 83 (5) 952-969 [2015-05-00; online 2015-03-25]

DDLS Fellow Milka Doktorova

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Autoantibody response against NALP5/MATER in primary ovarian insufficiency and in autoimmune Addison's disease.

Brozzetti A, Alimohammadi M, Morelli S, ..., Falorni A, Italian Addison Network

J. Clin. Endocrinol. Metab. 100 (5) 1941-1948 [2015-05-00; online 2015-03-03]

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Age- and sex-specific causal effects of adiposity on cardiovascular risk factors.

Fall T, Hägg S, Ploner A, ..., Ingelsson E, ENGAGE Consortium

Diabetes 64 (5) 1841-1852 [2015-05-00; online 2015-02-23]

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African origin for Madagascan dogs revealed by mtDNA analysis.

Ardalan A, Oskarsson MC, van Asch B, Rabakonandriania E, Savolainen P

R Soc Open Sci 2 (5) 140552 [2015-05-00; online 2015-05-20]

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'True' null allele detection in microsatellite loci: a comparison of methods, assessment of difficulties and survey of possible improvements.

Dąbrowski MJ, Bornelöv S, Kruczyk M, Baltzer N, Komorowski J

Mol Ecol Resour 15 (3) 477-488 [2015-05-00; online 2014-09-26]

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Nanoparticle-stabilized microbubbles for multimodal imaging and drug delivery.

Mørch Ý, Hansen R, Berg S, ..., de Lange Davies C, Stenstad PM

Contrast Media Mol Imaging 10 (5) 356-366 [2015-04-30; online 2015-04-30]

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An epigenome-wide association study of total serum immunoglobulin E concentration.

Liang L, Willis-Owen SAG, Laprise C, ..., Moffatt MF, Cookson WOCM

Nature 520 (7549) 670-674 [2015-04-30; online 2015-02-18]

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Endostatin, Cathepsin S, and Cathepsin L, and Their Association with Inflammatory Markers and Mortality in Patients Undergoing Hemodialysis.

Carlsson AC, Carrero JJ, Stenvinkel P, ..., Larsson A, Ärnlöv J

Blood Purif. 39 (4) 259-265 [2015-04-29; online 2015-04-29]

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Single-Cell Characterization of in vitro Migration and Interaction Dynamics of T Cells Expanded with IL-2 and IL-7.

Tauriainen J, Gustafsson K, Göthlin M, ..., Uhlin M, Önfelt B

Front Immunol 6 (-) 196 [2015-04-28; online 2015-04-28]

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All-atom 3D structure prediction of transmembrane β-barrel proteins from sequences.

Hayat S, Sander C, Marks DS, Elofsson A

Proc. Natl. Acad. Sci. U.S.A. 112 (17) 5413-5418 [2015-04-28; online 2015-04-09]

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Frequency and distribution of Notch mutations in tumor cell lines.

Mutvei AP, Fredlund E, Lendahl U

BMC Cancer 15 (-) 311 [2015-04-25; online 2015-04-25]

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PubMed DOI Crossref

Membrane nanoclusters-tails of the unexpected.

Sezgin E, Davis SJ, Eggeling C

Cell 161 (3) 433-434 [2015-04-23; online 2015-04-25]

Erdinc Sezgin SciLifeLab Fellow

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Genetically determined height and coronary artery disease.

Nelson CP, Hamby SE, Saleheen D, ..., Samani NJ, CARDIoGRAM+C4D Consortium

N. Engl. J. Med. 372 (17) 1608-1618 [2015-04-23; online 2015-04-08]

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Adaptive lipid packing and bioactivity in membrane domains.

Sezgin E, Gutmann T, Buhl T, ..., Levental I, Schwille P

PLoS ONE 10 (4) e0123930 [2015-04-23; online 2015-04-23]

Erdinc Sezgin SciLifeLab Fellow

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Fast and sensitive total protein and Peptide assays for proteomic analysis.

Wiśniewski JR, Gaugaz FZ

Anal. Chem. 87 (8) 4110-4116 [2015-04-21; online 2015-04-09]

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Circulating carnosine dipeptidase 1 associates with weight loss and poor prognosis in gastrointestinal cancer.

Arner P, Henjes F, Schwenk JM, ..., Nilsson P, Rydén M

PLoS ONE 10 (4) e0123566 [2015-04-21; online 2015-04-21]

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What matters for lac repressor search in vivo--sliding, hopping, intersegment transfer, crowding on DNA or recognition?

Mahmutovic A, Berg OG, Elf J

Nucleic Acids Res. 43 (7) 3454-3464 [2015-04-20; online 2015-03-16]

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Solid-phase cloning for high-throughput assembly of single and multiple DNA parts.

Lundqvist M, Edfors F, Sivertsson Å, ..., Uhlén M, Rockberg J

Nucleic Acids Res. 43 (7) e49 [2015-04-20; online 2015-01-23]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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CRISPR/Cas9-mediated endogenous protein tagging for RESOLFT super-resolution microscopy of living human cells.

Ratz M, Testa I, Hell SW, Jakobs S

Sci Rep 5 (1) 9592 [2015-04-20; online 2015-04-20]

Ilaria Testa SciLifeLab Fellow

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Exploration of the arrest peptide sequence space reveals arrest-enhanced variants.

Cymer F, Hedman R, Ismail N, von Heijne G

J. Biol. Chem. 290 (16) 10208-10215 [2015-04-17; online 2015-02-24]

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Different distribution of histone modifications in genes with unidirectional and bidirectional transcription and a role of CTCF and cohesin in directing transcription.

Bornelöv S, Komorowski J, Wadelius C

BMC Genomics 16 (-) 300 [2015-04-15; online 2015-04-15]

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Extensive intra-phylotype diversity in lactobacilli and bifidobacteria from the honeybee gut.

Ellegaard KM, Tamarit D, Javelind E, ..., Andersson SG, Vásquez A

BMC Genomics 16 (-) 284 [2015-04-11; online 2015-04-11]

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PubMed DOI Crossref

AP-1-mediated chromatin looping regulates ZEB2 transcription: new insights into TNFα-induced epithelial-mesenchymal transition in triple-negative breast cancer.

Qiao Y, Shiue CN, Zhu J, ..., Zhao C, Dahlman-Wright K

Oncotarget 6 (10) 7804-7814 [2015-04-10; online 2015-03-13]

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PubMed DOI Crossref

Synthesis and bioactivity of β-substituted fosmidomycin analogues targeting 1-deoxy-D-xylulose-5-phosphate reductoisomerase.

Chofor R, Sooriyaarachchi S, Risseeuw MD, ..., Mowbray SL, Van Calenbergh S

J. Med. Chem. 58 (7) 2988-3001 [2015-04-09; online 2015-03-31]

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PubMed DOI Crossref

The structure of the human mitochondrial ribosome

Amunts A, Brown A, Toots J, Scheres SHW, Ramakrishnan V

Science 348 (6230) 95-98 [2015-04-03; online 2015-04-02]

Alexey Amunts SciLifeLab Fellow

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An entity evolving into a community: defining the common ancestor and evolutionary trajectory of chronic lymphocytic leukemia stereotyped subset #4.

Sutton LA, Papadopoulos G, Hadzidimitriou A, ..., Tzovaras D, Stamatopoulos K

Mol. Med. 20 (-) 720-728 [2015-04-02; online 2015-04-02]

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Neighborhood deprivation and warfarin, aspirin and statin prescription - A cohort study of men and women treated for atrial fibrillation in Swedish primary care.

Carlsson AC, Wändell P, Gasevic D, Sundquist J, Sundquist K

Int. J. Cardiol. 187 (-) 547-552 [2015-04-01; online 2015-04-01]

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Behavioral cost & overdominance in Anopheles gambiae.

Diop MM, Moiroux N, Chandre F, ..., Labbé P, Pennetier C

PLoS ONE 10 (4) e0121755 [2015-04-01; online 2015-04-01]

Pascal Milesi SciLifeLab Fellow

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A prognosis based classification of undifferentiated uterine sarcomas: identification of mitotic index, hormone receptors and YWHAE-FAM22 translocation status as predictors of survival.

Gremel G, Liew M, Hamzei F, ..., Pontén F, Carlson JW

Int. J. Cancer 136 (7) 1608-1618 [2015-04-01; online 2014-08-27]

Affiliated researcher

PubMed DOI Crossref

Synthesis and biological evaluation of [¹¹C]AZ12504948; a novel tracer for imaging of glucokinase in pancreas and liver.

Jahan M, Johnström P, Nag S, ..., Halldin C, Eriksson O

Nucl. Med. Biol. 42 (4) 387-394 [2015-04-00; online 2014-12-06]

Olof Eriksson SciLifeLab Fellow

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Synchrotron X-ray phase nano-tomography-based analysis of the lacunar-canalicular network morphology and its relation to the strains experienced by osteocytes in situ as predicted by case-specific finite element analysis.

Varga P, Hesse B, Langer M, ..., Peyrin F, Raum K

Biomech Model Mechanobiol 14 (2) 267-282 [2015-04-00; online 2014-07-11]

Affiliated researcher

PubMed DOI Crossref

RIFINs are adhesins implicated in severe Plasmodium falciparum malaria.

Goel S, Palmkvist M, Moll K, ..., Nilsson I, Wahlgren M

Nat. Med. 21 (4) 314-317 [2015-04-00; online 2015-03-09]

Affiliated researcher

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Nanoclusters of the resting T cell antigen receptor (TCR) localize to non-raft domains.

Beck-García K, Beck-García E, Bohler S, ..., Alarcón B, Schamel WW

Biochim. Biophys. Acta 1853 (4) 802-809 [2015-04-00; online 2014-12-20]

Erdinc Sezgin SciLifeLab Fellow

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Molecular histology of lung cancer: from targets to treatments.

Wood SL, Pernemalm M, Crosbie PA, Whetton AD

Cancer Treat. Rev. 41 (4) 361-375 [2015-04-00; online 2015-02-20]

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Microfluidic-based isolation of bacteria from whole blood for sepsis diagnostics.

Zelenin S, Hansson J, Ardabili S, ..., Brismar H, Russom A

Biotechnol. Lett. 37 (4) 825-830 [2015-04-00; online 2014-11-21]

Affiliated researcher

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Matrix metalloproteinase-9 is essential for physiological Beta cell function and islet vascularization in adult mice.

Christoffersson G, Waldén T, Sandberg M, ..., Carlsson PO, Phillipson M

Am. J. Pathol. 185 (4) 1094-1103 [2015-04-00; online 2015-02-07]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

Lysophosphatidic acid receptor (LPAR) modulators: The current pharmacological toolbox.

Llona-Minguez S, Ghassemian A, Helleday T

Prog. Lipid Res. 58 (-) 51-75 [2015-04-00; online 2015-02-20]

Affiliated researcher

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Immunohistochemistry-based prognostic biomarkers in NSCLC: novel findings on the road to clinical use?

Lindskog C, Edlund K, Mattsson JS, Micke P

Expert Rev. Mol. Diagn. 15 (4) 471-490 [2015-04-00; online 2015-01-19]

Affiliated researcher

PubMed DOI Crossref

High levels of soluble tumor necrosis factor receptors 1 and 2 and their association with mortality in patients undergoing hemodialysis.

Carlsson AC, Carrero JJ, Stenvinkel P, ..., Larsson A, Ärnlöv J

Cardiorenal Med 5 (2) 89-95 [2015-04-00; online 2015-01-30]

Affiliated researcher

PubMed DOI Crossref

GWAS-identified loci for coronary heart disease are associated with intima-media thickness and plaque presence at the carotid artery bulb.

den Hoed M, Strawbridge RJ, Almgren P, ..., Melander O, Lind L

Atherosclerosis 239 (2) 304-310 [2015-04-00; online 2015-01-31]

Affiliated researcher

PubMed DOI Crossref

Functional anti-CD94/NKG2A and anti-CD94/NKG2C autoantibodies in patients with systemic lupus erythematosus.

Hagberg N, Theorell J, Hjorton K, ..., Bryceson YT, Rönnblom L

Arthritis & rheumatology (Hoboken, N.J.) 67 (4) 1000-1011 [2015-04-00; online 2014-12-17]

Affiliated researcher

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Extreme recombination frequencies shape genome variation and evolution in the honeybee, Apis mellifera.

Wallberg A, Glémin S, Webster MT

PLoS Genet 11 (4) e1005189 [2015-04-00; online 2015-04-22]

Affiliated researcher

PubMed DOI Crossref

Evidence of streptococcal origin of acute non-necrotising cellulitis: a serological study.

Karppelin M, Siljander T, Haapala AM, ..., Vuopio J, Syrjänen J

Eur. J. Clin. Microbiol. Infect. Dis. 34 (4) 669-672 [2015-04-00; online 2014-11-18]

Affiliated researcher

PubMed DOI Crossref

Estrogen receptor alpha mediates epithelial to mesenchymal transition, expression of specific matrix effectors and functional properties of breast cancer cells.

Bouris P, Skandalis SS, Piperigkou Z, ..., Theocharis AD, Karamanos NK

Matrix Biol. 43 (-) 42-60 [2015-04-00; online 2015-02-27]

Affiliated researcher

PubMed DOI Crossref

Duffy antigen receptor genetic variant and the association with Interleukin 8 levels.

Moreno Velásquez I, Kumar J, Björkbacka H, ..., de Faire U, Gigante B

Cytokine 72 (2) 178-184 [2015-04-00; online 2015-01-31]

Affiliated researcher

PubMed DOI Crossref

Critical role of somatostatin receptor 2 in the vulnerability of the central noradrenergic system: new aspects on Alzheimer's disease.

Ádori C, Glück L, Barde S, ..., Schulz S, Hökfelt T

Acta Neuropathol. 129 (4) 541-563 [2015-04-00; online 2015-02-13]

Affiliated researcher

PubMed DOI Crossref

Chimeric antigen receptor-engineered T cells for the treatment of metastatic prostate cancer.

Hillerdal V, Essand M

BioDrugs 29 (2) 75-89 [2015-04-00; online 2015-04-11]

Affiliated researcher

PubMed DOI Crossref

Calcium signaling in neocortical development.

Uhlén P, Fritz N, Smedler E, Malmersjö S, Kanatani S

Dev Neurobiol 75 (4) 360-368 [2015-04-00; online 2015-02-18]

Affiliated researcher

PubMed DOI Crossref

Adiposity as a cause of cardiovascular disease: a Mendelian randomization study.

Hägg S, Fall T, Ploner A, ..., Ingelsson E, European Network for Genetic and Genomic Epidemiology Consortium

Int J Epidemiol 44 (2) 578-586 [2015-04-00; online 2015-05-27]

Affiliated researcher

PubMed DOI Crossref

Aberrant post-translational modifications compromise human myosin motor function in old age.

Li M, Ogilvie H, Ochala J, ..., Bergquist J, Larsson L

Aging Cell 14 (2) 228-235 [2015-04-00; online 2015-02-02]

Affiliated researcher

PubMed DOI Crossref

A missense change in the ATG4D gene links aberrant autophagy to a neurodegenerative vacuolar storage disease.

Kyöstilä K, Syrjä P, Jagannathan V, ..., Lohi H, Leeb T

PLoS Genet 11 (4) e1005169 [2015-04-00; online 2015-04-15]

Affiliated researcher

PubMed DOI Crossref

The code for directing proteins for translocation across ER membrane: SRP cotranslationally recognizes specific features of a signal sequence.

Nilsson I, Lara P, Hessa T, ..., von Heijne G, Karamyshev AL

J. Mol. Biol. 427 (6 Pt A) 1191-1201 [2015-03-27; online 2014-06-28]

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PubMed DOI Crossref

Rewired metabolism in drug-resistant leukemia cells: a metabolic switch hallmarked by reduced dependence on exogenous glutamine.

Stäubert C, Bhuiyan H, Lindahl A, ..., Lehtiö J, Nordström A

J. Biol. Chem. 290 (13) 8348-8359 [2015-03-27; online 2015-02-19]

Affiliated researcher

PubMed DOI Crossref

Dissecting antibodies with regards to linear and conformational epitopes.

Forsström B, Axnäs BB, Rockberg J, ..., Bohlin A, Uhlen M

PLoS ONE 10 (3) e0121673 [2015-03-27; online 2015-03-27]

Affiliated researcher

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Catalytic stimulation by restrained active-site floppiness--the case of high density lipoprotein-bound serum paraoxonase-1.

Ben-David M, Sussman JL, Maxwell CI, ..., Kamerlin SCL, Tawfik DS

J. Mol. Biol. 427 (6 Pt B) 1359-1374 [2015-03-27; online 2015-01-30]

Affiliated researcher

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Low RBM3 protein expression correlates with clinical stage, prognostic classification and increased risk of treatment failure in testicular non-seminomatous germ cell cancer.

Olofsson SE, Nodin B, Gaber A, ..., Jirström K, Jerkeman M

PLoS ONE 10 (3) e0121300 [2015-03-26; online 2015-03-26]

Affiliated researcher

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Transducin duplicates in the zebrafish retina and pineal complex: differential specialisation after the teleost tetraploidisation.

Lagman D, Callado-Pérez A, Franzén IE, Larhammar D, Abalo XM

PLoS ONE 10 (3) e0121330 [2015-03-25; online 2015-03-25]

Affiliated researcher

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Crystal structures of the kinase domain of the sulfate-activating complex in Mycobacterium tuberculosis.

Poyraz Ö, Brunner K, Lohkamp B, ..., Schnell R, Schneider G

PLoS ONE 10 (3) e0121494 [2015-03-25; online 2015-03-25]

Affiliated researcher

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Coordinated international action to accelerate genome-to-phenome with FAANG, the Functional Annotation of Animal Genomes project.

Andersson L, Archibald AL, Bottema CD, ..., Zhou H, FAANG Consortium

Genome Biol. 16 (-) 57 [2015-03-25; online 2015-03-25]

Affiliated researcher

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A validated liquid chromatography tandem mass spectrometry method for quantification of erlotinib, OSI-420 and didesmethyl erlotinib and semi-quantification of erlotinib metabolites in human plasma.

Svedberg A, Gréen H, Vikström A, Lundeberg J, Vikingsson S

J Pharm Biomed Anal 107 (-) 186-195 [2015-03-25; online 2014-12-25]

Affiliated researcher

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Molecular docking screening using agonist-bound GPCR structures: probing the A2A adenosine receptor.

Rodríguez D, Gao ZG, Moss SM, Jacobson KA, Carlsson J

J Chem Inf Model 55 (3) 550-563 [2015-03-23; online 2015-02-13]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Proteomics profiling identify CAPS as a potential predictive marker of tamoxifen resistance in estrogen receptor positive breast cancer.

Johansson HJ, Sanchez BC, Forshed J, ..., Lehtiö J, Linderholm BK

Clin Proteomics 12 (1) 8 [2015-03-21; online 2015-03-21]

Affiliated researcher

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The effects of exendin-4 treatment on graft failure: an animal study using a novel re-vascularized minimal human islet transplant model.

Sahraoui A, Winzell MS, Gorman T, ..., Foss A, Scholz H

PLoS ONE 10 (3) e0121204 [2015-03-20; online 2015-03-20]

Affiliated researcher

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Chondroitin / dermatan sulfate modification enzymes in zebrafish development.

Habicher J, Haitina T, Eriksson I, ..., Ahlberg PE, Ledin J

PLoS ONE 10 (3) e0121957 [2015-03-20; online 2015-03-20]

Affiliated researcher

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A Comprehensive, Automatically Updated Fungal ITS Sequence Dataset for Reference-Based Chimera Control in Environmental Sequencing Efforts.

Nilsson RH, Tedersoo L, Ryberg M, ..., Edgar RC, Abarenkov K

Microbes Environ 30 (2) 145-150 [2015-03-19; online 2015-03-19]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Local hopping mobile DNA implicated in pseudogene formation and reductive evolution in an obligate cyanobacteria-plant symbiosis.

Vigil-Stenman T, Larsson J, Nylander JA, Bergman B

BMC Genomics 16 (-) 193 [2015-03-17; online 2015-03-17]

Affiliated researcher

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Resistant Microbial Cooccurrence Patterns Inferred by Network Topology

Peura S, Bertilsson S, Jones RI, Eiler A

Appl. Environ. Microbiol. 81 (6) 2090-2097 [2015-03-15; online 2015-01-09]

Affiliated researcher Sari Peura SciLifeLab Fellow

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No redistribution of lung blood flow by inhaled nitric oxide in endotoxemic piglets pretreated with an endothelin receptor antagonist.

Trachsel S, Hambraeus-Jonzon K, Bergquist M, ..., Chen L, Hedenstierna G

J. Appl. Physiol. 118 (6) 768-775 [2015-03-15; online 2014-12-30]

Affiliated researcher

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Microsatellite instability and mutations in BRAF and KRAS are significant predictors of disseminated disease in colon cancer.

Birgisson H, Edlund K, Wallin U, ..., Glimelius B, Sundström M

BMC Cancer 15 (-) 125 [2015-03-14; online 2015-03-14]

Affiliated researcher

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The NDST gene family in zebrafish: role of NDST1B in pharyngeal arch formation.

Filipek-Górniok B, Carlsson P, Haitina T, ..., Ledin J, Kjellén L

PLoS ONE 10 (3) e0119040 [2015-03-13; online 2015-03-13]

Affiliated researcher

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Mechanisms of integral membrane protein insertion and folding.

Cymer F, von Heijne G, White SH

J. Mol. Biol. 427 (5) 999-1022 [2015-03-13; online 2014-09-30]

Affiliated researcher

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Computational and molecular tools for scalable rAAV-mediated genome editing.

Stoimenov I, Ali MA, Pandzic T, Sjöblom T

Nucleic Acids Res. 43 (5) e30 [2015-03-11; online 2014-12-08]

Affiliated researcher

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How valence bond theory can help you understand your (bio)chemical reaction.

Shurki A, Derat E, Barrozo A, Kamerlin SC

Chem Soc Rev 44 (5) 1037-1052 [2015-03-07; online 2014-10-30]

Affiliated researcher

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Bisphosphonate-modified biomaterials for drug delivery and bone tissue engineering.

Ossipov DA

Expert Opin Drug Deliv 12 (9) 1443-1458 [2015-03-05; online 2015-03-05]

Affiliated researcher

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Binding of subdomains 1/2 of PfEMP1-DBL1α to heparan sulfate or heparin mediates Plasmodium falciparum rosetting.

Angeletti D, Sandalova T, Wahlgren M, Achour A

PLoS ONE 10 (3) e0118898 [2015-03-05; online 2015-03-05]

Affiliated researcher

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Microglia-Secreted Galectin-3 Acts as a Toll-like Receptor 4 Ligand and Contributes to Microglial Activation.

Burguillos MA, Svensson M, Schulte T, ..., Joseph B, Deierborg T

Cell Reports - (-) - [2015-03-04; online 2015-03-04]

Affiliated researcher

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Hybrid origins and the earliest stages of diploidization in the highly successful recent polyploid Capsella bursa-pastoris.

Douglas GM, Gos G, Steige KA, ..., Slotte T, Wright SI

Proc. Natl. Acad. Sci. U.S.A. 112 (9) 2806-2811 [2015-03-03; online 2015-02-17]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

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Proteomic profiling reveals autoimmune targets in sarcoidosis.

Häggmark A, Hamsten C, Wiklundh E, ..., Grunewald J, Nilsson P

Am. J. Respir. Crit. Care Med. 191 (5) 574-583 [2015-03-01; online 2015-01-22]

Affiliated researcher

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The H1-receptor antagonist cetirizine ameliorates high-fat diet-induced glucose intolerance in male C57BL/6 mice, but not diabetes outcome in female non-obese diabetic (NOD) mice.

Anvari E, Wang X, Sandler S, Welsh N

Ups. J. Med. Sci. 120 (1) 40-46 [2015-03-00; online 2014-10-07]

Affiliated researcher

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Targeted next-generation sequencing in chronic lymphocytic leukemia: a high-throughput yet tailored approach will facilitate implementation in a clinical setting.

Sutton LA, Ljungström V, Mansouri L, ..., Stamatopoulos K, Rosenquist R

Haematologica 100 (3) 370-376 [2015-03-00; online 2014-12-05]

Affiliated researcher

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Protein kinase A directly phosphorylates metabotropic glutamate receptor 5 to modulate its function.

Uematsu K, Heiman M, Zelenina M, ..., Nishi A, Greengard P

J. Neurochem. 132 (6) 677-686 [2015-03-00; online 2015-03-04]

Affiliated researcher

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Preclinical characterization of acyl sulfonimidamides: potential carboxylic acid bioisosteres with tunable properties.

Borhade SR, Svensson R, Brandt P, ..., Arvidsson PI, Sandström A

ChemMedChem 10 (3) 455-460 [2015-03-00; online 2015-01-28]

Affiliated researcher

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Plasma IL-5 concentration and subclinical carotid atherosclerosis.

Silveira A, McLeod O, Strawbridge RJ, ..., de Faire U, Hamsten A

Atherosclerosis 239 (1) 125-130 [2015-03-00; online 2014-12-23]

Affiliated researcher

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Pharmacotherapy and mortality in atrial fibrillation--a cohort of men and women 75 years or older in Sweden.

Wändell PE, Carlsson AC, Sundquist J, ..., Bottai M, Sundquist K

Age Ageing 44 (2) 232-238 [2015-03-00; online 2014-10-16]

Affiliated researcher

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Palmitate-induced impairments of β-cell function are linked with generation of specific ceramide species via acylation of sphingosine.

Manukyan L, Ubhayasekera SJ, Bergquist J, Sargsyan E, Bergsten P

Endocrinology 156 (3) 802-812 [2015-03-00; online 2014-12-23]

Affiliated researcher

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PXK locus in systemic lupus erythematosus: fine mapping and functional analysis reveals novel susceptibility gene ABHD6.

Oparina NY, Delgado-Vega AM, Martinez-Bueno M, ..., Alarcon-Riquelme ME, Kozyrev SV

Ann. Rheum. Dis. 74 (3) e14 [2015-03-00; online 2014-02-17]

Affiliated researcher

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MuSK: a new target for lethal fetal akinesia deformation sequence (FADS).

Wilbe M, Ekvall S, Eurenius K, ..., Annerén G, Bondeson ML

J. Med. Genet. 52 (3) 195-202 [2015-03-00; online 2015-01-22]

Affiliated researcher

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Integrated genome and transcriptome sequencing of the same cell.

Dey SS, Kester L, Spanjaard B, Bienko M, van Oudenaarden A

Nat. Biotechnol. 33 (3) 285-289 [2015-03-00; online 2015-01-19]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

Increased levels of IL-6 in the cerebrospinal fluid of patients with chronic schizophrenia--significance for activation of the kynurenine pathway.

Schwieler L, Larsson MK, Skogh E, ..., Erhardt S, Engberg G

J Psychiatry Neurosci 40 (2) 126-133 [2015-03-00; online 2014-12-03]

Affiliated researcher

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Imaging of a clinically relevant stroke model: glucose hypermetabolism revisited.

Arnberg F, Grafström J, Lundberg J, ..., Stone-Elander S, Holmin S

Stroke 46 (3) 835-842 [2015-03-00; online 2015-02-05]

Affiliated researcher

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FGF2 as a potential prognostic biomarker for proneural glioma patients.

Sooman L, Freyhult E, Jaiswal A, ..., Bergqvist M, Ekman S

Acta Oncol 54 (3) 385-394 [2015-03-00; online 2014-09-29]

Affiliated researcher

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Differential transcriptional regulation of orthologous dps genes from two closely related heterocyst-forming cyanobacteria.

Li X, Sandh G, Nenninger A, Muro-Pastor AM, Stensjö K

FEMS Microbiol. Lett. 362 (6) - [2015-03-00; online 2015-02-05]

Affiliated researcher

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Convergent evolution of the genomes of marine mammals.

Foote AD, Liu Y, Thomas GW, ..., Gilbert MT, Gibbs RA

Nat. Genet. 47 (3) 272-275 [2015-03-00; online 2015-01-26]

Affiliated researcher

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A study of the clinical and radiological features in a cohort of 93 patients with a COL2A1 mutation causing spondyloepiphyseal dysplasia congenita or a related phenotype.

Terhal PA, Nievelstein RJ, Verver EJ, ..., Coucke P, Mortier GR

Am. J. Med. Genet. A 167A (3) 461-475 [2015-03-00; online 2015-01-21]

Affiliated researcher

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A genomic duplication is associated with ectopic eomesodermin expression in the embryonic chicken comb and two duplex-comb phenotypes.

Dorshorst B, Harun-Or-Rashid M, Bagherpoor AJ, ..., Hallböök F, Andersson L

PLoS Genet 11 (3) e1004947 [2015-03-00; online 2015-03-19]

Affiliated researcher

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An Integrated Bioinformatics Approach for Identifying Genetic Markers that Predict Cerebrospinal Fluid Biomarker p-tau181/Aβ1-42 Ratio in ApoE4-Negative Mild Cognitive Impairment Patients.

Sun Y, Bresell A, Rantalainen M, ..., Salter H, Alzheimer Disease Neuroimaging Initiative

J. Alzheimers Dis. 45 (4) 1061-1076 [2015-02-28; online 2015-02-28]

Affiliated researcher

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Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells.

Arner E, Daub CO, Vitting-Seerup K, ..., Carninci P, Hayashizaki Y

Science 347 (6225) 1010-1014 [2015-02-27; online 2015-02-12]

Affiliated researcher

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Influence of antifreeze proteins on the ice/water interface.

Todde G, Hovmöller S, Laaksonen A

J Phys Chem B 119 (8) 3407-3413 [2015-02-26; online 2015-02-10]

Affiliated researcher

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Genetic depletion and pharmacological targeting of αv integrin in breast cancer cells impairs metastasis in zebrafish and mouse xenograft models.

Li Y, Drabsch Y, Pujuguet P, ..., Clément-Lacroix P, Ten Dijke P

Breast Cancer Res. 17 (-) 28 [2015-02-25; online 2015-02-25]

Affiliated researcher

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Hydrophobic blocks facilitate lipid compatibility and translocon recognition of transmembrane protein sequences.

Stone TA, Schiller N, von Heijne G, Deber CM

Biochemistry 54 (7) 1465-1473 [2015-02-24; online 2015-02-12]

Affiliated researcher

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Overexpression of heparanase lowers the amyloid burden in amyloid-β precursor protein transgenic mice.

Jendresen CB, Cui H, Zhang X, ..., Nilsson LN, Li JP

J. Biol. Chem. 290 (8) 5053-5064 [2015-02-20; online 2014-12-29]

Affiliated researcher

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Capture Hi-C identifies the chromatin interactome of colorectal cancer risk loci.

Jäger R, Migliorini G, Henrion M, ..., Fletcher O, Houlston RS

Nat Commun 6 (-) 6178 [2015-02-19; online 2015-02-19]

Affiliated researcher

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No difference in small bowel microbiota between patients with irritable bowel syndrome and healthy controls.

Dlugosz A, Winckler B, Lundin E, ..., Engstrand L, Lindberg G

Sci Rep 5 (-) 8508 [2015-02-17; online 2015-02-17]

Affiliated researcher

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DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia.

Nordlund J, Bäcklin CL, Zachariadis V, ..., Forestier E, Syvänen AC

Clin Epigenetics 7 (-) 11 [2015-02-17; online 2015-02-17]

Affiliated researcher

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Genome-wide enrichment analysis between endometriosis and obesity-related traits reveals novel susceptibility loci.

Rahmioglu N, Macgregor S, Drong AW, ..., Lindgren CM, Zondervan KT

Hum. Mol. Genet. 24 (4) 1185-1199 [2015-02-15; online 2014-10-08]

Affiliated researcher

PubMed

Dosimetry of [(68)Ga]Ga-DO3A-VS-Cys(40)-Exendin-4 in rodents, pigs, non-human primates and human - repeated scanning in human is possible.

Selvaraju RK, Bulenga TN, Espes D, ..., Velikyan I, Eriksson O

American journal of nuclear medicine and molecular imaging 5 (3) 259-269 [2015-02-15; online 2015-02-15]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

New genetic loci link adipose and insulin biology to body fat distribution.

Shungin D, Winkler TW, Croteau-Chonka DC, ..., Lindgren CM, Mohlke KL

Nature 518 (7538) 187-196 [2015-02-12; online 2015-02-13]

Affiliated researcher

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Genetic studies of body mass index yield new insights for obesity biology.

Locke AE, Kahali B, Berndt SI, ..., Loos RJF, Speliotes EK

Nature 518 (7538) 197-206 [2015-02-12; online 2015-02-13]

Affiliated researcher

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Clonal distribution of BCR-ABL1 mutations and splice isoforms by single-molecule long-read RNA sequencing.

Cavelier L, Ameur A, Häggqvist S, ..., Olsson-Strömberg U, Hermanson M

BMC Cancer 15 (-) 45 [2015-02-12; online 2015-02-12]

Affiliated researcher

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Deciphering solution scattering data with experimentally guided molecular dynamics simulations.

Björling A, Niebling S, Marcellini M, van der Spoel D, Westenhoff S

J Chem Theory Comput 11 (2) 780-787 [2015-02-10; online 2015-02-18]

Affiliated researcher

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Methods applicable to membrane nanodomain studies?

Ashrafzadeh P, Parmryd I

Essays Biochem. 57 (-) 57-68 [2015-02-07; online 2015-02-07]

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A Bayesian decision support tool for efficient dose individualization of warfarin in adults and children.

Hamberg AK, Hellman J, Dahlberg J, Jonsson EN, Wadelius M

BMC Med Inform Decis Mak 15 (-) 7 [2015-02-07; online 2015-02-07]

Affiliated researcher

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System-wide analysis of the transcriptional network of human myelomonocytic leukemia cells predicts attractor structure and phorbol-ester-induced differentiation and dedifferentiation transitions.

Sakata K, Ohyanagi H, Sato S, ..., Suzuki H, Saito T

Sci Rep 5 (-) 8283 [2015-02-06; online 2015-02-06]

Affiliated researcher

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Synthesis of 4-quinolones via a carbonylative Sonogashira cross-coupling using molybdenum hexacarbonyl as a CO source.

Åkerbladh L, Nordeman P, Wejdemar M, Odell LR, Larhed M

J. Org. Chem. 80 (3) 1464-1471 [2015-02-06; online 2015-01-21]

Affiliated researcher

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Etomidate, propofol and diazepam potentiate GABA-evoked GABAA currents in a cell line derived from human glioblastoma.

Babateen O, Jin Z, Bhandage A, ..., Smits A, Birnir B

Eur. J. Pharmacol. 748 (-) 101-107 [2015-02-05; online 2014-12-12]

Affiliated researcher

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Rapid reprogramming of epigenetic and transcriptional profiles in mammalian culture systems.

Nestor CE, Ottaviano R, Reinhardt D, ..., Benson M, Meehan RR

Genome Biol. 16 (1) 11 [2015-02-04; online 2015-02-04]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

PON-P2: prediction method for fast and reliable identification of harmful variants.

Niroula A, Urolagin S, Vihinen M

PLoS ONE 10 (2) e0117380 [2015-02-03; online 2015-02-03]

Abhishek Niroula DDLS Fellow

PubMed DOI Crossref

Novel readout method for molecular diagnostic assays based on optical measurements of magnetic nanobead dynamics.

Donolato M, Antunes P, Bejhed RS, ..., Hansen MF, Vavassori P

Anal. Chem. 87 (3) 1622-1629 [2015-02-03; online 2015-01-09]

Affiliated researcher

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Microbial community composition and diversity via 16S rRNA gene amplicons: evaluating the illumina platform.

Sinclair L, Osman OA, Bertilsson S, Eiler A

PLoS ONE 10 (2) e0116955 [2015-02-03; online 2015-02-03]

Affiliated researcher

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Identifying anti-growth factors for human cancer cell lines through genome-scale metabolic modeling.

Ghaffari P, Mardinoglu A, Asplund A, ..., Uhlen M, Nielsen J

Sci Rep 5 (1) 8183 [2015-02-02; online 2015-02-02]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Flagellin as carrier and adjuvant in cocaine vaccine development.

Lockner JW, Eubanks LM, Choi JL, ..., Wilson IA, Janda KD

Mol. Pharm. 12 (2) 653-662 [2015-02-02; online 2015-01-07]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Viral and cellular proteins containing FGDF motifs bind G3BP to block stress granule formation.

Panas MD, Schulte T, Thaa B, ..., Achour A, McInerney GM

PLoS Pathog 11 (2) e1004659 [2015-02-00; online 2015-02-06]

Affiliated researcher

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Splenic marginal-zone lymphoma: ontogeny and genetics.

Baliakas P, Strefford JC, Bikos V, ..., Stamatopoulos K, Oscier D

Leuk. Lymphoma 56 (2) 301-310 [2015-02-00; online 2014-08-19]

Affiliated researcher

PubMed DOI Crossref

Recurrent mutations refine prognosis in chronic lymphocytic leukemia.

Baliakas P, Hadzidimitriou A, Sutton LA, ..., Rosenquist R, European Research Initiative on CLL (ERIC)

Leukemia 29 (2) 329-336 [2015-02-00; online 2014-06-19]

Affiliated researcher

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Proposal of Thorsellia kenyensis sp. nov. and Thorsellia kandunguensis sp. nov., isolated from larvae of Anopheles arabiensis, as members of the family Thorselliaceae fam. nov.

Kämpfer P, Glaeser SP, Nilsson LK, ..., Busse HJ, Terenius O

Int. J. Syst. Evol. Microbiol. 65 (Pt 2) 444-451 [2015-02-00; online 2014-11-10]

Affiliated researcher

PubMed DOI Crossref

Predicting venous thrombosis in women using a combination of genetic markers and clinical risk factors.

Bruzelius M, Bottai M, Sabater-Lleal M, ..., Hamsten A, Odeberg J

J. Thromb. Haemost. 13 (2) 219-227 [2015-02-00; online 2015-01-12]

Affiliated researcher

PubMed DOI Crossref

Interleukin-8 is associated with increased total mortality in women but not in men-findings from a community-based cohort of elderly.

Moreno Velásquez I, Ärnlöv J, Leander K, ..., Gigante B, Carlsson AC

Ann. Med. 47 (1) 28-33 [2015-02-00; online 2014-10-10]

Affiliated researcher

PubMed DOI Crossref

Genome-wide association study identifies shared risk loci common to two malignancies in golden retrievers.

Tonomura N, Elvers I, Thomas R, ..., Breen M, Lindblad-Toh K

PLoS Genet 11 (2) e1004922 [2015-02-00; online 2015-02-02]

Affiliated researcher

PubMed DOI Crossref

Genome and physiology of the ascomycete filamentous fungus Xeromyces bisporus, the most xerophilic organism isolated to date.

Leong SL, Lantz H, Pettersson OV, ..., Tellgren-Roth C, Schnürer J

Environ. Microbiol. 17 (2) 496-513 [2015-02-00; online 2014-10-07]

Affiliated researcher

PubMed DOI Crossref

Gating pore currents are defects in common with two Nav1.5 mutations in patients with mixed arrhythmias and dilated cardiomyopathy

Moreau A, Gosselin-Badaroudine P, Delemotte L, Klein ML, Chahine M

J Gen Physiol 145 (2) 93-106 [2015-02-00; online 2015-01-26]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Expression of human skin-specific genes defined by transcriptomics and antibody-based profiling.

Edqvist PH, Fagerberg L, Hallström BM, ..., Uhlén M, Pontén F

J. Histochem. Cytochem. 63 (2) 129-141 [2015-02-00; online 2014-11-19]

Affiliated researcher

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Development and validation of method for TH588 and TH287, potent MTH1 inhibitors and new anti-cancer agents, for pharmacokinetic studies in mice plasma.

Saleh A, Gökturk C, Warpman-Berglund U, Helleday T, Granelli I

J Pharm Biomed Anal 104 (-) 1-11 [2015-02-00; online 2014-11-15]

Affiliated researcher

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Detection of glyco-mucin profiles improves specificity of MUC16 and MUC1 biomarkers in ovarian serous tumours.

Ricardo S, Marcos-Silva L, Pereira D, ..., Lunet N, David L

Mol Oncol 9 (2) 503-512 [2015-02-00; online 2014-10-22]

Affiliated researcher

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Clonal evolution in chronic lymphocytic leukemia: impact of subclonality on disease progression.

Sutton LA, Rosenquist R

Expert Rev Hematol 8 (1) 71-78 [2015-02-00; online 2014-10-27]

Affiliated researcher

PubMed DOI Crossref

Charge-driven dynamics of nascent-chain movement through the SecYEG translocon.

Ismail N, Hedman R, Lindén M, von Heijne G

Nat. Struct. Mol. Biol. 22 (2) 145-149 [2015-02-00; online 2015-01-05]

Affiliated researcher

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Canalicular network morphology is the major determinant of the spatial distribution of mass density in human bone tissue: evidence by means of synchrotron radiation phase-contrast nano-CT.

Hesse B, Varga P, Langer M, ..., Peyrin F, Raum K

J. Bone Miner. Res. 30 (2) 346-356 [2015-02-00; online 2014-08-19]

Affiliated researcher

PubMed DOI Crossref

CTNND2-a candidate gene for reading problems and mild intellectual disability.

Hofmeister W, Nilsson D, Topa A, ..., Syk Lundberg E, Lindstrand A

J. Med. Genet. 52 (2) 111-122 [2015-02-00; online 2014-12-03]

Affiliated researcher

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Bactobolin A Binds to a Site on the 70S Ribosome Distinct from Previously Seen Antibiotics

Amunts A, Fiedorczuk K, Truong TT, ..., Greenberg EP, Ramakrishnan V

Journal of Molecular Biology 427 (4) 753-755 [2015-02-00; online 2015-02-00]

Alexey Amunts SciLifeLab Fellow

PubMed DOI Crossref

A general method for rapid determination of antibiotic susceptibility and species in bacterial infections.

Mezger A, Gullberg E, Göransson J, ..., Nilsson M, Andersson DI

J. Clin. Microbiol. 53 (2) 425-432 [2015-02-00; online 2014-11-19]

Affiliated researcher

PubMed DOI Crossref

Chromatin-dependent regulation of RNA polymerases II and III activity throughout the transcription cycle

Jordán-Pla A, Gupta I, de Miguel-Jiménez L, ..., Pelechano V, Pérez-Ortín JE

Nucleic Acids Res. 43 (2) 787-802 [2015-01-30; online 2014-12-29]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Not all IGHV3-21 chronic lymphocytic leukemias are equal: prognostic considerations.

Baliakas P, Agathangelidis A, Hadzidimitriou A, ..., Rosenquist R, Stamatopoulos K

Blood 125 (5) 856-859 [2015-01-29; online 2014-12-17]

Affiliated researcher

PubMed DOI Crossref

Low-frequency and rare exome chip variants associate with fasting glucose and type 2 diabetes susceptibility.

Wessel J, Chu AY, Willems SM, ..., Scott RA, Goodarzi MO

Nat Commun 6 (-) 5897 [2015-01-29; online 2015-01-29]

Affiliated researcher

PubMed DOI Crossref

Regulation of human adenovirus alternative RNA splicing by the adenoviral L4-33K and L4-22K proteins.

Biasiotto R, Akusjärvi G

Int J Mol Sci 16 (2) 2893-2912 [2015-01-28; online 2015-01-28]

Affiliated researcher

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Endonuclease specificity and sequence dependence of type IIS restriction enzymes.

Lundin S, Jemt A, Terje-Hegge F, ..., Lexow P, Lundeberg J

PLoS ONE 10 (1) e0117059 [2015-01-28; online 2015-01-28]

Affiliated researcher

PubMed DOI Crossref

TRAF6 promotes TGFβ-induced invasion and cell-cycle regulation via Lys63-linked polyubiquitination of Lys178 in TGFβ type I receptor.

Sundar R, Gudey SK, Heldin CH, Landström M

Cell Cycle 14 (4) 554-565 [2015-01-27; online 2015-01-27]

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Intratumoral genome diversity parallels progression and predicts outcome in pediatric cancer.

Mengelbier LH, Karlsson J, Lindgren D, ..., Mayrhofer M, Gisselsson D

Nat Commun 6 (-) 6125 [2015-01-27; online 2015-01-27]

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Scaling predictive modeling in drug development with cloud computing.

Moghadam BT, Alvarsson J, Holm M, ..., Carlsson L, Spjuth O

J Chem Inf Model 55 (1) 19-25 [2015-01-26; online 2015-01-08]

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Proteomics. Tissue-based map of the human proteome.

Uhlén M, Fagerberg L, Hallström BM, ..., Nielsen J, Pontén F

Science (New York, N.Y.) 347 (6220) 1260419 [2015-01-23; online 2015-01-24]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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The mutational landscapes of genetic and chemical models of Kras-driven lung cancer.

Westcott PM, Halliwill KD, To MD, ..., Adams DJ, Balmain A

Nature 517 (7535) 489-492 [2015-01-22; online 2014-11-02]

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Automatic GROMACS topology generation and comparisons of force fields for solvation free energy calculations.

Lundborg M, Lindahl E

J Phys Chem B 119 (3) 810-823 [2015-01-22; online 2014-11-07]

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Hydrogel patterning by diffusion through the matrix and subsequent light-triggered chemical immobilization.

Yi Z, Zhang Y, Kootala S, Hilborn J, Ossipov DA

ACS Appl Mater Interfaces 7 (2) 1194-1206 [2015-01-21; online 2015-01-09]

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Coupled diffusion in lipid bilayers upon close approach.

Pronk S, Lindahl E, Kasson PM

J. Am. Chem. Soc. 137 (2) 708-714 [2015-01-21; online 2015-01-06]

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Biological interpretation of genome-wide association studies using predicted gene functions.

Pers TH, Karjalainen JM, Chan Y, ..., Hirschhorn JN, Franke L

Nat Commun 6 (-) 5890 [2015-01-19; online 2015-01-19]

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Ancient mitochondrial DNA from the northern fringe of the Neolithic farming expansion in Europe sheds light on the dispersion process.

Malmström H, Linderholm A, Skoglund P, ..., Lidén K, Götherström A

Philos. Trans. R. Soc. Lond., B, Biol. Sci. 370 (1660) 20130373 [2015-01-19; online 2014-12-10]

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Variation in the human immune system is largely driven by non-heritable influences.

Brodin P, Jojic V, Gao T, ..., Maecker HT, Davis MM

Cell 160 (1-2) 37-47 [2015-01-15; online 2015-01-17]

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The human otubain2-ubiquitin structure provides insights into the cleavage specificity of poly-ubiquitin-linkages.

Altun M, Walter TS, Kramer HB, ..., Ren J, Kessler BM

PLoS ONE 10 (1) e0115344 [2015-01-15; online 2015-01-15]

Affiliated researcher

PubMed

Dosimetry of [(177)Lu]-DO3A-VS-Cys(40)-Exendin-4 - impact on the feasibility of insulinoma internal radiotherapy.

Velikyan I, Bulenga TN, Selvaraju R, ..., Rosenström U, Eriksson O

American journal of nuclear medicine and molecular imaging 5 (2) 109-126 [2015-01-15; online 2015-01-15]

Olof Eriksson SciLifeLab Fellow

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A proteomic approach to monitor the dynamic response of the female oviductal epithelial cell surface to male gametes.

Artemenko K, Horáková J, Steinberger B, ..., Bergquist J, Mayrhofer C

J Proteomics 113 (-) 1-14 [2015-01-15; online 2014-10-02]

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Dual channel RESOLFT nanoscopy by using fluorescent state kinetics.

Testa I, D'Este E, Urban NT, Balzarotti F, Hell SW

Nano Lett. 15 (1) 103-106 [2015-01-14; online 2014-12-02]

Ilaria Testa SciLifeLab Fellow

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Pan-vertebrate comparative genomics unmasks retrovirus macroevolution.

Hayward A, Cornwallis CK, Jern P

Proc. Natl. Acad. Sci. U.S.A. 112 (2) 464-469 [2015-01-13; online 2014-12-22]

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Combined MYC and P53 defects emerge at medulloblastoma relapse and define rapidly progressive, therapeutically targetable disease.

Hill RM, Kuijper S, Lindsey JC, ..., Chesler L, Clifford SC

Cancer Cell 27 (1) 72-84 [2015-01-12; online 2014-12-18]

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A high-throughput ChIP-Seq for large-scale chromatin studies.

Chabbert CD, Adjalley SH, Klaus B, ..., Pelechano V, Steinmetz LM

Mol Syst Biol 11 (1) 777 [2015-01-12; online 2015-01-12]

SciLifeLab Fellow Vicent Pelechano

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The origin and evolution of maize in the Southwestern United States.

da Fonseca RR, Smith BD, Wales N, ..., Ross-Ibarra J, Gilbert MT

Nat Plants 1 (-) 14003 [2015-01-08; online 2015-01-08]

Affiliated researcher

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Multiscale simulations of human telomeric G-quadruplex DNA.

Rebič M, Mocci F, Laaksonen A, Uličný J

J Phys Chem B 119 (1) 105-113 [2015-01-08; online 2014-12-17]

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DCDC2 mutations cause a renal-hepatic ciliopathy by disrupting Wnt signaling.

Schueler M, Braun DA, Chandrasekar G, ..., Kere J, Hildebrandt F

Am. J. Hum. Genet. 96 (1) 81-92 [2015-01-08; online 2014-12-31]

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TRIM28 represses transcription of endogenous retroviruses in neural progenitor cells.

Fasching L, Kapopoulou A, Sachdeva R, ..., Trono D, Jakobsson J

Cell Reports 10 (1) 20-28 [2015-01-06; online 2014-12-24]

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Free-energy landscape of ion-channel voltage-sensor–domain activation

Delemotte L, Kasimova MA, Klein ML, Tarek M, Carnevale V

Proceedings of the National Academy of Sciences 112 (1) 124-129 [2015-01-06; online 2014-12-22]

Lucie Delemotte SciLifeLab Fellow

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Mutagenesis. Smoking is associated with mosaic loss of chromosome Y.

Dumanski JP, Rasi C, Lönn M, ..., Ingelsson E, Forsberg LA

Science 347 (6217) 81-83 [2015-01-02; online 2014-12-04]

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A secretagogin locus of the mammalian hypothalamus controls stress hormone release.

Romanov RA, Alpár A, Zhang MD, ..., Hökfelt T, Harkany T

EMBO J. 34 (1) 36-54 [2015-01-02; online 2014-11-27]

Affiliated researcher

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Characterization of peptide QRFP (26RFa) and its receptor from amphioxus, Branchiostoma floridae.

Xu B, Bergqvist CA, Sundström G, ..., Leprince J, Larhammar D

Gen. Comp. Endocrinol. 210 (-) 107-113 [2015-01-01; online 2014-10-25]

Affiliated researcher

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VEGF suppresses T-lymphocyte infiltration in the tumor microenvironment through inhibition of NF-κB-induced endothelial activation.

Huang H, Langenkamp E, Georganaki M, ..., Kreuger J, Dimberg A

FASEB J. 29 (1) 227-238 [2015-01-00; online 2014-10-31]

Affiliated researcher

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The mutational landscape in pediatric acute lymphoblastic leukemia deciphered by whole genome sequencing.

Lindqvist CM, Nordlund J, Ekman D, ..., Syvänen AC, Berglund EC

Hum. Mutat. 36 (1) 118-128 [2015-01-00; online 2014-10-31]

Affiliated researcher

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The human gastrointestinal tract-specific transcriptome and proteome as defined by RNA sequencing and antibody-based profiling.

Gremel G, Wanders A, Cedernaes J, ..., Uhlén M, Pontén F

J. Gastroenterol. 50 (1) 46-57 [2015-01-00; online 2014-05-01]

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The high mobility group A2 protein epigenetically silences the Cdh1 gene during epithelial-to-mesenchymal transition.

Tan EJ, Kahata K, Idås O, ..., Heldin CH, Moustakas A

Nucleic Acids Res. 43 (1) 162-178 [2015-01-00; online 2014-12-09]

Affiliated researcher

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The Biobanking Analysis Resource Catalogue (BARCdb): a new research tool for the analysis of biobank samples.

Galli J, Oelrich J, Taussig MJ, ..., Ortega-Paino E, Landegren U

Nucleic Acids Res. 43 (Database issue) D1158-D1162 [2015-01-00; online 2014-10-21]

Affiliated researcher

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Synthesis of Vinyl- and Aryl-Acyl Sulfonimidamides Through Pd-Catalyzed Carbonylation Using Mo(CO)6as ex situ CO Source

Wakchaure PB, Borhade SR, Sandström A, Arvidsson PI

Eur. J. Org. Chem. 2015 (1) 213-219 [2015-01-00; online 2014-11-19]

Affiliated researcher

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Spatially resolved transcriptomics and beyond.

Crosetto N, Bienko M, van Oudenaarden A

Nat. Rev. Genet. 16 (1) 57-66 [2015-01-00; online 2014-12-02]

Affiliated researcher Magda Bienko SciLifeLab Fellow

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Reprogramming of Yersinia from virulent to persistent mode revealed by complex in vivo RNA-seq analysis.

Avican K, Fahlgren A, Huss M, ..., Dersch P, Fällman M

PLoS Pathog 11 (1) e1004600 [2015-01-00; online 2015-01-15]

Affiliated researcher

PubMed DOI Crossref

Lessons and implications from association studies and post-GWAS analyses of cervical cancer.

Chen D, Gyllensten U

Trends in Genetics 31 (1) 41-54 [2015-01-00; online 2014-11-18]

Affiliated researcher

PubMed DOI Crossref

InParanoid 8: orthology analysis between 273 proteomes, mostly eukaryotic.

Sonnhammer EL, Östlund G

Nucleic Acids Res. 43 (Database issue) D234-D239 [2015-01-00; online 2014-11-27]

Affiliated researcher

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In vitro functional studies of rare CYP21A2 mutations and establishment of an activity gradient for nonclassic mutations improve phenotype predictions in congenital adrenal hyperplasia.

Barbaro M, Soardi FC, Östberg LJ, ..., Wedell A, Lajic S

Clin. Endocrinol. (Oxf) 82 (1) 37-44 [2015-01-00; online 2014-07-07]

Affiliated researcher

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Immunoglobulin heavy variable (IGHV) genes and alleles: new entities, new names and implications for research and prognostication in chronic lymphocytic leukaemia.

Xochelli A, Agathangelidis A, Kavakiotis I, ..., Lefranc MP, Stamatopoulos K

Immunogenetics 67 (1) 61-66 [2015-01-00; online 2014-11-12]

Affiliated researcher

PubMed DOI Crossref

Identification and functional characterization of G6PC2 coding variants influencing glycemic traits define an effector transcript at the G6PC2-ABCB11 locus.

Mahajan A, Sim X, Ng HJ, ..., Gloyn AL, T2D-GENES consortium and GoT2D consortium

PLoS Genet 11 (1) e1004876 [2015-01-00; online 2015-01-27]

Affiliated researcher

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High plasma levels of heparin-binding epidermal growth factor are associated with a more stable plaque phenotype and reduced incidence of coronary events.

Rattik S, Wigren M, Björkbacka H, ..., Gonçalves I, Nilsson J

Arterioscler. Thromb. Vasc. Biol. 35 (1) 222-228 [2015-01-00; online 2014-10-30]

Affiliated researcher

PubMed DOI Crossref

HMG-coenzyme A reductase inhibition, type 2 diabetes, and bodyweight: evidence from genetic analysis and randomised trials

Swerdlow DI, Preiss D, Kuchenbaecker KB, ..., Hingorani AD, Sattar N

The Lancet 385 (9965) 351-361 [2015-01-00; online 2015-01-00]

Affiliated researcher

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Deregulated proliferation and differentiation in brain tumors.

Swartling FJ, Čančer M, Frantz A, Weishaupt H, Persson AI

Cell Tissue Res. 359 (1) 225-254 [2015-01-00; online 2014-11-23]

Affiliated researcher

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Deciphering the molecular landscape in chronic lymphocytic leukemia: time frame of disease evolution.

Sutton LA, Rosenquist R

Haematologica 100 (1) 7-16 [2015-01-00; online 2015-01-02]

Affiliated researcher

PubMed DOI Crossref

Combining an amyloid-beta (Aβ) cleaving enzyme inhibitor with a γ-secretase modulator results in an additive reduction of Aβ production.

Strömberg K, Eketjäll S, Georgievska B, ..., Cowburn RF, Dabrowski M

FEBS J. 282 (1) 65-73 [2015-01-00; online 2014-11-07]

Affiliated researcher

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Avoiding pitfalls in L1-regularised inference of gene networks.

Tjärnberg A, Nordling TE, Studham M, Nelander S, Sonnhammer EL

Mol Biosyst 11 (1) 287-296 [2015-01-00; online 2014-11-07]

Affiliated researcher

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Assessment of HaloPlex amplification for sequence capture and massively parallel sequencing of arrhythmogenic right ventricular cardiomyopathy-associated genes.

Gréen A, Gréen H, Rehnberg M, ..., Gunnarsson C, Jonasson J

J Mol Diagn 17 (1) 31-42 [2015-01-00; online 2014-10-24]

Affiliated researcher

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Applied Enantioselective Aminocatalysis: α-Heteroatom Functionalization Reactions on the Carbapenem (β-Lactam Antibiotic) Core

Cele ZED, Arvidsson PI, Kruger HG, Govender T, Naicker T

Eur. J. Org. Chem. 2015 (3) 638-646 [2015-01-00; online 2014-12-11]

Affiliated researcher

PubMed DOI Crossref

A Machine Learning Approach to Explain Drug Selectivity to Soluble and Membrane Protein Targets.

Freyhult E, Gustafsson MG, Strömbergsson H

Mol Inform 34 (1) 44-52 [2015-01-00; online 2015-01-08]

Affiliated researcher

DOI Crossref

Pd-catalyzed C–N coupling of vinylbromides and sulfonimidamides: a facile synthesis of N′-vinylsulfonimidamides

Nandi GC, Kota SR, Wakchaure PB, ..., Naicker T, Arvidsson PI

RSC Adv. 5 (76) 62084-62090 [2015-00-00; online 2015-00-00]

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On-chip ultrasonic sample preparation for cell based assays

Iranmanesh I, Ramachandraiah H, Russom A, Wiklund M

RSC Adv. 5 (91) 74304-74311 [2015-00-00; online 2015-00-00]

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Modulation of Bacterial Proliferation as a Survival Strategy

Heinrich K, Leslie DJ, Jonas K

- - (-) 127-171 [2015-00-00; online 2015-00-00]

Kristina Jonas SciLifeLab Fellow

DOI Crossref

Intriguing properties of unusual silicon nanocrystals

Manzetti S, Lu T, Behzadi H, ..., Thi Le HL, Vach H

RSC Adv. 5 (95) 78192-78208 [2015-00-00; online 2015-00-00]

Affiliated researcher

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Functional porous membranes from amorphous linear dendritic polyester hybrids

Mongkhontreerat S, Walter MV, Cai Y, ..., Hult A, Malkoch M

Polym. Chem. 6 (13) 2390-2395 [2015-00-00; online 2015-00-00]

Affiliated researcher

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Discovery of trace amine-associated receptor 1 ligands by molecular docking screening against a homology model

Lam VM, Rodríguez D, Zhang T, ..., Carlsson J, Salahpour A

Med. Chem. Commun. 6 (12) 2216-2223 [2015-00-00; online 2015-00-00]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

The kidney transcriptome and proteome defined by transcriptomics and antibody-based profiling.

Habuka M, Fagerberg L, Hallström BM, ..., Uhlén M, Odeberg J

PLoS ONE 9 (12) e116125 [2014-12-31; online 2014-12-31]

Affiliated researcher

PubMed DOI Crossref

No evidence for genome-wide interactions on plasma fibrinogen by smoking, alcohol consumption and body mass index: results from meta-analyses of 80,607 subjects.

Baumert J, Huang J, McKnight B, ..., Peters A, Smith NL

PLoS ONE 9 (12) e111156 [2014-12-31; online 2014-12-31]

Affiliated researcher

PubMed DOI Crossref

Genomic, proteomic, morphological, and phylogenetic analyses of vB_EcoP_SU10, a podoviridae phage with C3 morphology.

Khan Mirzaei M, Mirzaei MK, Eriksson H, ..., Haggård-Ljungquist E, Nilsson AS

PLoS ONE 9 (12) e116294 [2014-12-31; online 2014-12-31]

Affiliated researcher

PubMed DOI Crossref

Prehistoric genomes reveal the genetic foundation and cost of horse domestication.

Schubert M, Jónsson H, Chang D, ..., Shapiro B, Orlando L

Proc. Natl. Acad. Sci. U.S.A. 111 (52) E5661-E5669 [2014-12-30; online 2014-12-15]

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PubMed DOI Crossref

The human pancreas proteome defined by transcriptomics and antibody-based profiling.

Danielsson A, Pontén F, Fagerberg L, ..., Korsgren O, Lindskog C

PLoS ONE 9 (12) e115421 [2014-12-29; online 2014-12-29]

Affiliated researcher

PubMed DOI Crossref

The transcriptomic and proteomic landscapes of bone marrow and secondary lymphoid tissues.

Andersson S, Nilsson K, Fagerberg L, ..., Uhlen M, Asplund A

PLoS ONE 9 (12) e115911 [2014-12-26; online 2014-12-26]

Affiliated researcher

PubMed DOI Crossref

Mechanical stress downregulates MHC class I expression on human cancer cell membrane.

La Rocca R, Tallerico R, Talib Hassan A, ..., Di Fabrizio E, Carbone E

PLoS ONE 9 (12) e111758 [2014-12-26; online 2014-12-26]

Affiliated researcher

PubMed DOI Crossref

Clonal hematopoiesis and blood-cancer risk inferred from blood DNA sequence.

Genovese G, Kähler AK, Handsaker RE, ..., Hultman CM, McCarroll SA

N. Engl. J. Med. 371 (26) 2477-2487 [2014-12-25; online 2014-11-26]

Affiliated researcher

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Arabidopsis cytosolic acyl-CoA-binding proteins ACBP4, ACBP5 and ACBP6 have overlapping but distinct roles in seed development.

Hsiao AS, Haslam RP, Michaelson LV, ..., Tanner JA, Chye ML

Biosci. Rep. 34 (6) e00165 [2014-12-23; online 2014-12-23]

Affiliated researcher

PubMed DOI Crossref

Enhanced normal-direction excitation and emission of dual-emitting quantum dots on a cascaded photonic crystal surface.

Chen ZH, Wang Y, Yang Y, ..., Wang Y, Yu Z

Nanoscale 6 (24) 14708-14715 [2014-12-21; online 2014-09-19]

Affiliated researcher

PubMed DOI Crossref

Palladium(II)-catalyzed desulfitative synthesis of aryl ketones from sodium arylsulfinates and nitriles: scope, limitations, and mechanistic studies.

Skillinghaug B, Sköld C, Rydfjord J, ..., Sjöberg PJ, Larhed M

J. Org. Chem. 79 (24) 12018-12032 [2014-12-19; online 2014-10-31]

Affiliated researcher

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Germline methylation patterns determine the distribution of recombination events in the dog genome.

Berglund J, Quilez J, Arndt PF, Webster MT

Genome Biol Evol 7 (2) 522-530 [2014-12-19; online 2014-12-19]

Affiliated researcher

PubMed DOI Crossref

Granulocytes Impose a Tight Bottleneck upon the Gut Luminal Pathogen Population during Salmonella Typhimurium Colitis

Maier L, Diard M, Sellin ME, ..., Regoes RR, Hardt WD

PLoS Pathog 10 (12) e1004557 [2014-12-18; online 2014-12-18]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Therapeutic vaccination against fibronectin ED-A attenuates progression of metastatic breast cancer.

Femel J, Huijbers EJ, Saupe F, ..., Hellman L, Olsson AK

Oncotarget 5 (23) 12418-12427 [2014-12-15; online 2014-11-02]

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PubMed DOI Crossref

The scaffold protein WRAP53β orchestrates the ubiquitin response critical for DNA double-strand break repair.

Henriksson S, Rassoolzadeh H, Hedström E, ..., Helleday T, Farnebo M

Genes Dev. 28 (24) 2726-2738 [2014-12-15; online 2014-12-17]

Affiliated researcher

PubMed DOI Crossref

The cerebrospinal fluid cytokine signature of multiple sclerosis: a homogenous response that does not conform to the Th1/Th2/Th17 convention.

Burman J, Svensson E, Fransson M, ..., Fagius J, Mangsbo SM

J. Neuroimmunol. 277 (1-2) 153-159 [2014-12-15; online 2014-10-18]

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A novel AP4M1 mutation in autosomal recessive cerebral palsy syndrome and clinical expansion of AP-4 deficiency.

Jameel M, Klar J, Tariq M, ..., Baig SM, Dahl N

BMC Med. Genet. 15 (-) 133 [2014-12-14; online 2014-12-14]

Affiliated researcher

PubMed DOI Crossref

Rapid pulsed whole genome sequencing for comprehensive acute diagnostics of inborn errors of metabolism.

Stranneheim H, Engvall M, Naess K, ..., von Döbeln U, Wedell A

BMC Genomics 15 (-) 1090 [2014-12-11; online 2014-12-11]

Affiliated researcher

PubMed DOI Crossref

Microfluidics-based in situ padlock/rolling circle amplification system for counting single DNA molecules in a cell.

Kuroda A, Ishigaki Y, Nilsson M, Sato K, Sato K

Anal Sci 30 (12) 1107-1112 [2014-12-11; online 2014-12-11]

Affiliated researcher

PubMed DOI Crossref

Diagnostics of primary immunodeficiency diseases: a sequencing capture approach.

Moens LN, Falk-Sörqvist E, Asplund AC, ..., Smith CI, Nilsson M

PLoS ONE 9 (12) e114901 [2014-12-11; online 2014-12-11]

Affiliated researcher

PubMed DOI Crossref

Genotypes do not confer risk for delinquency but rather alter susceptibility to positive and negative environmental factors: gene-environmentinteractions of BDNF Val66Met, 5-HTTLPR, and MAOA-uVNTR [corrected].

Nilsson KW, Comasco E, Hodgins S, Oreland L, Åslund C

Int J Neuropsychopharmacol 18 (5) - [2014-12-10; online 2014-12-10]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

TGFβ-induced invasion of prostate cancer cells is promoted by c-Jun-dependent transcriptional activation of Snail1.

Thakur N, Gudey SK, Marcusson A, ..., Heldin CH, Landström M

Cell Cycle 13 (15) 2400-2414 [2014-12-09; online 2014-12-09]

Affiliated researcher

PubMed DOI Crossref

Sensitive detection of aggregated prion protein via proximity ligation.

Hammond M, Wik L, Deslys JP, ..., Landegren U, Kamali-Moghaddam M

Prion 8 (3) 261-265 [2014-12-09; online 2014-12-09]

Affiliated researcher

PubMed DOI Crossref

Order Parameters and Algorithmic Approaches for Detection and Demarcation of Interfaces in Hydrate-Fluid and Ice-Fluid Systems.

Sæthre BS, Hoffmann AC, van der Spoel D

J Chem Theory Comput 10 (12) 5606-5615 [2014-12-09; online 2015-11-20]

Affiliated researcher

PubMed DOI Crossref

Inactivation of the budding yeast cohesin loader Scc2 alters gene expression both globally and in response to a single DNA double strand break.

Lindgren E, Hägg S, Giordano F, Björkegren J, Ström L

Cell Cycle 13 (23) 3645-3658 [2014-12-09; online 2014-12-09]

Affiliated researcher

PubMed DOI Crossref

Functional and molecular neuroimaging of menopause and hormone replacement therapy.

Comasco E, Frokjaer VG, Sundström-Poromaa I

Front Neurosci 8 (-) 388 [2014-12-08; online 2014-12-08]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Analysis of the early heterocyst Cys-proteome in the multicellular cyanobacterium Nostoc punctiforme reveals novel insights into the division of labor within diazotrophic filaments.

Sandh G, Ramström M, Stensjö K

BMC Genomics 15 (-) 1064 [2014-12-04; online 2014-12-04]

Affiliated researcher

PubMed DOI Crossref

Phenotypic effects of concomitant insensitive acetylcholinesterase (ace-1(R)) and knockdown resistance (kdr(R)) in Anopheles gambiae: a hindrance for insecticide resistance management for malaria vector control.

Assogba BS, Djogbénou LS, Saizonou J, ..., Weill M, Makoutodé M

Parasit Vectors 7 (-) 548 [2014-12-03; online 2014-12-03]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Cerebral microdialysis for protein biomarker monitoring in the neurointensive care setting - a technical approach.

Hillered L, Dahlin AP, Clausen F, ..., Enblad P, Lewén A

Front Neurol 5 (-) 245 [2014-12-03; online 2014-12-03]

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PubMed DOI Crossref

Shotgun metagenomics reveals a wide array of antibiotic resistance genes and mobile elements in a polluted lake in India.

Bengtsson-Palme J, Boulund F, Fick J, Kristiansson E, Larsson DG

Front Microbiol 5 (-) 648 [2014-12-02; online 2014-12-02]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Inhibition of tumor cell proliferation and motility by fibroblasts is both contact and soluble factor dependent.

Alkasalias T, Flaberg E, Kashuba V, ..., Klein G, Guven H

Proc. Natl. Acad. Sci. U.S.A. 111 (48) 17188-17193 [2014-12-02; online 2014-11-17]

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TGFβ receptor 1: an immune susceptibility gene in HPV-associated cancer.

Levovitz C, Chen D, Ivansson E, ..., Boffetta P, Sikora AG

Cancer Res. 74 (23) 6833-6844 [2014-12-01; online 2014-10-01]

Affiliated researcher

PubMed DOI Crossref

New insights into the evolution of vertebrate CRH (corticotropin-releasing hormone) and invertebrate DH44 (diuretic hormone 44) receptors in metazoans.

Cardoso JC, Félix RC, Bergqvist CA, Larhammar D

Gen. Comp. Endocrinol. 209 (-) 162-170 [2014-12-01; online 2014-09-16]

Affiliated researcher

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Variability of the transporter gene complement in ammonia-oxidizing archaea.

Offre P, Kerou M, Spang A, Schleper C

Trends Microbiol. 22 (12) 665-675 [2014-12-00; online 2014-08-26]

Affiliated researcher

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Understanding the structural and dynamic consequences of DNA epigenetic modifications: computational insights into cytosine methylation and hydroxymethylation.

Carvalho AT, Gouveia L, Kanna CR, ..., Platts JA, Kamerlin SC

Epigenetics 9 (12) 1604-1612 [2014-12-00; online 2015-01-28]

Affiliated researcher

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Toxicogenomics directory of chemically exposed human hepatocytes

Grinberg M, Stöber RM, Edlund K, ..., Rahnenführer J, Hengstler JG

Arch Toxicol 88 (12) 2261-2287 [2014-12-00; online 2014-11-16]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Therapeutic vaccination targeting the tumour vasculature.

Olsson AK

Biochem. Soc. Trans. 42 (6) 1653-1657 [2014-12-00; online 2014-11-18]

Affiliated researcher

PubMed DOI Crossref

The lung-specific proteome defined by integration of transcriptomics and antibody-based profiling.

Lindskog C, Fagerberg L, Hallström B, ..., Pontén F, Micke P

FASEB J. 28 (12) 5184-5196 [2014-12-00; online 2014-08-28]

Affiliated researcher

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The glioblastoma vasculature as a target for cancer therapy.

Dimberg A

Biochem. Soc. Trans. 42 (6) 1647-1652 [2014-12-00; online 2014-11-18]

Affiliated researcher

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The Salmonella Typhimurium effector protein SopE transiently localizes to the early SCV and contributes to intracellular replication

Vonaesch P, Sellin ME, Cardini S, ..., Barthel M, Hardt WD

Cell Microbiol 16 (12) 1723-1735 [2014-12-00; online 2014-08-26]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Superior long-term repopulating capacity of G-CSF+plerixafor-mobilized blood: implications for stem cell gene therapy by studies in the Hbb(th-3) mouse model.

Psatha N, Sgouramali E, Gkountis A, ..., Stamatoyannopoulos G, Yannaki E

Hum Gene Ther Methods 25 (6) 317-327 [2014-12-00; online 2014-10-22]

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Strategy to develop a MAO-A-resistant 5-hydroxy-L-[β-(11)C]tryptophan isotopologue based on deuterium kinetic isotope effects.

Eriksson J, Åberg O, Selvaraju RK, ..., Johansson L, Eriksson O

EJNMMI Res 4 (1) 62 [2014-12-00; online 2014-11-30]

Olof Eriksson SciLifeLab Fellow

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STED microscopy: increased resolution for medical research?

Blom H, Brismar H

J. Intern. Med. 276 (6) 560-578 [2014-12-00; online 2014-08-05]

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SATB1 is an independent prognostic factor in radically resected upper gastrointestinal tract adenocarcinoma.

Hedner C, Gaber A, Korkocic D, ..., Jirström K, Eberhard J

Virchows Arch. 465 (6) 649-659 [2014-12-00; online 2014-10-19]

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Pharmacogenetics, plasma concentrations, clinical signs and EEG during propofol treatment.

Khan MS, Zetterlund EL, Gréen H, ..., Persson H, Eintrei C

Basic Clin. Pharmacol. Toxicol. 115 (6) 565-570 [2014-12-00; online 2014-07-19]

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Marine sponge Cribrochalina vasculum compounds activate intrinsic apoptotic signaling and inhibit growth factor signaling cascades in non-small cell lung carcinoma.

Zovko A, Viktorsson K, Hååg P, ..., Carmeli S, Lewensohn R

Mol. Cancer Ther. 13 (12) 2941-2954 [2014-12-00; online 2014-10-15]

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MICA polymorphism: biology and importance in cancer.

Chen D, Gyllensten U

Carcinogenesis 35 (12) 2633-2642 [2014-12-00; online 2014-10-20]

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PubMed DOI Crossref

Large-scale metabolomic profiling identifies novel biomarkers for incident coronary heart disease.

Ganna A, Salihovic S, Sundström J, ..., Fall T, Ingelsson E

PLoS Genet 10 (12) e1004801 [2014-12-00; online 2014-12-11]

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Inhibition of Insulin-Regulated Aminopeptidase (IRAP) by Arylsulfonamides.

Borhade SR, Rosenström U, Sävmarker J, ..., Larhed M, Hallberg M

ChemistryOpen 3 (6) 256-263 [2014-12-00; online 2014-11-21]

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Impact of ABCB1 single nucleotide polymorphisms 1236C>T and 2677G>T on overall survival in FLT3 wild-type de novo AML patients with normal karyotype.

Jakobsen Falk I, Fyrberg A, Paul E, ..., Gréen H, Lotfi K

Br. J. Haematol. 167 (5) 671-680 [2014-12-00; online 2014-08-23]

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Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease

Mardinoglu A, Agren R, Kampf C, ..., Uhlen M, Nielsen J

Nat Commun 5 (1) - [2014-12-00; online 2014-01-14]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Gender differences and time trends in incidence and prevalence of type 2 diabetes in Sweden--a model explaining the diabetes epidemic worldwide today?

Wändell PE, Carlsson AC

Diabetes Res. Clin. Pract. 106 (3) e90-e92 [2014-12-00; online 2014-10-02]

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GABAergic terminals are a source of galanin to modulate cholinergic neuron development in the neonatal forebrain.

Keimpema E, Zheng K, Barde SS, ..., Hökfelt T, Harkany T

Cereb. Cortex 24 (12) 3277-3288 [2014-12-00; online 2013-07-29]

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Evaluation of efficacy of a new MEK inhibitor, RO4987655, in human tumor xenografts by [(18)F] FDG-PET imaging combined with proteomic approaches.

Tegnebratt T, Ruge E, Bader S, ..., Tessier J, Stone-Elander S

EJNMMI Res 4 (1) 34 [2014-12-00; online 2014-09-09]

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Emotional and cognitive functional imaging of estrogen and progesterone effects in the female human brain: a systematic review.

Toffoletto S, Lanzenberger R, Gingnell M, Sundström-Poromaa I, Comasco E

Psychoneuroendocrinology 50 (-) 28-52 [2014-12-00; online 2014-08-13]

Erika Comasco SciLifeLab Fellow

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Efficient application of next-generation sequencing for the diagnosis of rare genetic syndromes.

Madrigal I, Alvarez-Mora MI, Karlberg O, ..., Syvänen AC, Milà M

J. Clin. Pathol. 67 (12) 1099-1103 [2014-12-00; online 2014-09-30]

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Dual labeled Ag@SiO₂ core-shell nanoparticle based optical immunosensor for sensitive detection of E. coli.

Krishnan S, Chinnasamy T, Veerappan S, Senthilkumar K, Kannaiyan D

Mater Sci Eng C Mater Biol Appl 45 (-) 337-342 [2014-12-00; online 2014-09-16]

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Differences in anthropometric measures in immigrants and Swedish-born individuals: results from two community-based cohort studies.

Carlsson AC, Wändell P, Riserus U, ..., Hellénius ML, de Faire U

Prev Med 69 (-) 151-156 [2014-12-00; online 2014-10-02]

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Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage.

Ghylin TW, Garcia SL, Moya F, ..., Bertilsson S, McMahon KD

ISME J 8 (12) 2503-2516 [2014-12-00; online 2014-08-05]

Affiliated researcher Sarahi Garcia SciLifeLab Fellow

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Common genetic variants highlight the role of insulin resistance and body fat distribution in type 2 diabetes, independent of obesity.

Scott RA, Fall T, Pasko D, ..., Langenberg C, Wareham NJ

Diabetes 63 (12) 4378-4387 [2014-12-00; online 2014-06-19]

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Classification aided domain reduction for high dimensional optimization

Singh P, Ferranti F, Deschrijver D, Couckuyt I, Dhaene T

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Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

A splice variant of the human phosphohistidine phosphatase 1 (PHPT1) is degraded by the proteasome.

Inturi R, Wäneskog M, Vlachakis D, ..., Punga T, Bjerling P

Int. J. Biochem. Cell Biol. 57 (-) 69-75 [2014-12-00; online 2014-10-14]

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PyTMs: a useful PyMOL plugin for modeling common post-translational modifications.

Warnecke A, Sandalova T, Achour A, Harris RA

BMC Bioinformatics 15 (-) 370 [2014-11-28; online 2014-11-28]

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Antibiotics in fetal and early life and subsequent childhood asthma: nationwide population based study with sibling analysis.

Örtqvist AK, Lundholm C, Kieler H, ..., Ye W, Almqvist C

BMJ 349 (-) g6979 [2014-11-28; online 2014-11-28]

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Community-driven development for computational biology at Sprints, Hackathons and Codefests.

Möller S, Afgan E, Banck M, ..., Katayama T, Chapman BA

BMC Bioinformatics 15 Suppl 14 (-) S7 [2014-11-27; online 2014-11-27]

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Induced ice melting by the snow flea antifreeze protein from molecular dynamics simulations.

Todde G, Whitman C, Hovmöller S, Laaksonen A

J Phys Chem B 118 (47) 13527-13534 [2014-11-26; online 2014-11-12]

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Insights into the Role of Asp79(2.50) in β2 Adrenergic Receptor Activation from Molecular Dynamics Simulations

Ranganathan A, Dror RO, Carlsson J

Biochemistry 53 (46) 7283-7296 [2014-11-25; online 2014-11-12]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Benchmarking study of parameter variation when using signature fingerprints together with support vector machines.

Alvarsson J, Eklund M, Andersson C, ..., Spjuth O, Wikberg JE

J Chem Inf Model 54 (11) 3211-3217 [2014-11-24; online 2014-10-28]

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1p36 deletion is a marker for tumour dissemination in microsatellite stable stage II-III colon cancer.

Mayrhofer M, Kultima HG, Birgisson H, ..., Glimelius B, Isaksson A

BMC Cancer 14 (-) 872 [2014-11-24; online 2014-11-24]

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The Eph tyrosine kinase receptors EphB2 and EphA2 are novel proteolytic substrates of tissue factor/coagulation factor VIIa.

Eriksson O, Ramström M, Hörnaeus K, ..., Mokhtari D, Siegbahn A

J. Biol. Chem. 289 (47) 32379-32391 [2014-11-21; online 2014-10-03]

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Safe Palladium-Catalyzed Cross-Couplings with Microwave Heating Using Continuous-Flow Silicon Carbide Reactors

Konda V, Rydfjord J, Sävmarker J, Larhed M

Org. Process Res. Dev. 18 (11) 1413-1418 [2014-11-21; online 2014-08-05]

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Microwave Heated Flow Synthesis of Spiro-oxindole Dihydroquinazolinone Based IRAP Inhibitors

Engen K, Sävmarker J, Rosenström U, ..., Jenmalm-Jensen A, Larhed M

Org. Process Res. Dev. 18 (11) 1582-1588 [2014-11-21; online 2014-10-16]

Affiliated researcher

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Constitutive activation of the ERK pathway in melanoma and skin melanocytes in Grey horses.

Jiang L, Campagne C, Sundström E, ..., Andersson L, Golovko A

BMC Cancer 14 (-) 857 [2014-11-21; online 2014-11-21]

Affiliated researcher

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Scanning STED-FCS reveals spatiotemporal heterogeneity of lipid interaction in the plasma membrane of living cells.

Honigmann A, Mueller V, Ta H, ..., Hell SW, Eggeling C

Nat Commun 5 (-) 5412 [2014-11-20; online 2014-11-20]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Single-cell transcriptomics for microbial eukaryotes.

Kolisko M, Boscaro V, Burki F, Lynn DH, Keeling PJ

Curr. Biol. 24 (22) R1081-R1082 [2014-11-17; online 2014-11-17]

Fabien Burki SciLifeLab Fellow

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Reprogramming during epithelial to mesenchymal transition under the control of TGFβ.

Tan EJ, Olsson AK, Moustakas A

Cell Adh Migr 9 (3) 233-246 [2014-11-17; online 2014-11-17]

Affiliated researcher

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Pathway analysis of cervical cancer genome-wide association study highlights the MHC region and pathways involved in response to infection.

Chen D, Enroth S, Ivansson E, Gyllensten U

Hum. Mol. Genet. 23 (22) 6047-6060 [2014-11-15; online 2014-06-16]

Affiliated researcher

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Reduced expression of the polymeric immunoglobulin receptor in pancreatic and periampullary adenocarcinoma signifies tumour progression and poor prognosis.

Fristedt R, Elebro J, Gaber A, ..., Eberhard J, Jirström K

PLoS ONE 9 (11) e112728 [2014-11-14; online 2014-11-14]

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Endostatin level is associated with kidney injury in the elderly: findings from two community-based cohorts.

Ruge T, Carlsson AC, Larsson TE, ..., Lind L, Ärnlöv J

Am. J. Nephrol. 40 (5) 417-424 [2014-11-14; online 2014-11-14]

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Structure of the large ribosomal subunit from human mitochondria

Brown A, Amunts A, Bai Xc, ..., Scheres SHW, Ramakrishnan V

Science 346 (6210) 718-722 [2014-11-07; online 2014-10-02]

Alexey Amunts SciLifeLab Fellow

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Defining the Human Adipose Tissue Proteome To Reveal Metabolic Alterations in Obesity

Mardinoglu A, Kampf C, Asplund A, ..., Uhlen M, Nielsen J

J. Proteome Res. 13 (11) 5106-5119 [2014-11-07; online 2014-09-25]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Analysis of autoantibody profiles in osteoarthritis using comprehensive protein array concepts.

Henjes F, Lourido L, Ruiz-Romero C, ..., Nilsson P, Fuentes M

J. Proteome Res. 13 (11) 5218-5229 [2014-11-07; online 2014-10-09]

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Affinity proteomic profiling of plasma, cerebrospinal fluid, and brain tissue within multiple sclerosis.

Byström S, Ayoglu B, Häggmark A, ..., Nilsson P, Schwenk JM

J. Proteome Res. 13 (11) 4607-4619 [2014-11-07; online 2014-10-01]

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Quantifying colocalization: thresholding, void voxels and the H(coef).

Adler J, Parmryd I

PLoS ONE 9 (11) e111983 [2014-11-06; online 2014-11-06]

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Efficient Multisite Unnatural Amino Acid Incorporation in Mammalian Cells via Optimized Pyrrolysyl tRNA Synthetase/tRNA Expression and Engineered eRF1

Schmied WH, Elsässer SJ, Uttamapinant C, Chin JW

J. Am. Chem. Soc. 136 (44) 15577-15583 [2014-11-05; online 2014-10-28]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Detection of rotavirus using padlock probes and rolling circle amplification.

Mezger A, Öhrmalm C, Herthnek D, Blomberg J, Nilsson M

PLoS ONE 9 (11) e111874 [2014-11-04; online 2014-11-04]

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Gallium-68-labeled affibody molecule for PET imaging of PDGFRβ expression in vivo.

Strand J, Varasteh Z, Eriksson O, ..., Orlova A, Tolmachev V

Mol. Pharm. 11 (11) 3957-3964 [2014-11-03; online 2014-07-23]

Olof Eriksson SciLifeLab Fellow

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Study of protein and RNA in dendritic spines using multi-isotope imaging mass spectrometry (MIMS).

Brismar H, Aperia A, Westin L, ..., Poczatek C, Lechene C

Surf Interface Anal 46 (Suppl 1) 158-160 [2014-11-01; online 2015-09-18]

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Tracing the evolution of FERM domain of Kindlins.

Ali RH, Khan AA

Mol. Phylogenet. Evol. 80 (-) 193-204 [2014-11-00; online 2014-08-20]

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The association between glomerular filtration rate and left ventricular function in two independent community-based cohorts of elderly.

Nerpin E, Ingelsson E, Risérus U, ..., Lars L, Ärnlöv J

Nephrol. Dial. Transplant. 29 (11) 2069-2074 [2014-11-00; online 2014-06-10]

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Systemic lupus erythematosus prevalence in Sweden in 2010: what do national registers say?

Simard JF, Sjöwall C, Rönnblom L, Jönsen A, Svenungsson E

Arthritis Care Res (Hoboken) 66 (11) 1710-1717 [2014-11-00; online 2014-04-24]

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Soluble tumor necrosis factor receptor 1 (sTNFR1) is associated with increased total mortality due to cancer and cardiovascular causes - findings from two community based cohorts of elderly.

Carlsson AC, Juhlin CC, Larsson TE, ..., Lind L, Arnlöv J

Atherosclerosis 237 (1) 236-242 [2014-11-00; online 2014-09-16]

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Silenced B-cell receptor response to autoantigen in a poor-prognostic subset of chronic lymphocytic leukemia.

Bergh AC, Evaldsson C, Pedersen LB, ..., Rosenquist R, Rosén A

Haematologica 99 (11) 1722-1730 [2014-11-00; online 2014-08-01]

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Polymeric Smart Coating Strategy for Titanium Implants

Berts I, Ossipov D, Fragneto G, Frisk A, Rennie AR

Adv. Eng. Mater. 16 (11) 1340-1350 [2014-11-00; online 2014-04-01]

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Parallel barcoding of antibodies for DNA-assisted proteomics.

Dezfouli M, Vickovic S, Iglesias MJ, Schwenk JM, Ahmadian A

Proteomics 14 (21-22) 2432-2436 [2014-11-00; online 2014-09-30]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

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Integration of genome-wide of Stat3 binding and epigenetic modification mapping with transcriptome reveals novel Stat3 target genes in glioma cells.

Kruczyk M, Przanowski P, Dabrowski M, ..., Kaminska B, Komorowski J

Biochim. Biophys. Acta 1839 (11) 1341-1350 [2014-11-00; online 2014-08-08]

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Influence of persistent organic pollutants on oxidative stress in population-based samples.

Kumar J, Monica Lind P, Salihovic S, ..., Lind L, Ingelsson E

Chemosphere 114 (-) 303-309 [2014-11-00; online 2014-06-02]

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Improved contact predictions using the recognition of protein like contact patterns.

Skwark MJ, Raimondi D, Michel M, Elofsson A

PLoS Comput Biol 10 (11) e1003889 [2014-11-00; online 2014-11-06]

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High-resolution mapping of transcriptional dynamics across tissue development reveals a stable mRNA–tRNA interface

Schmitt BM, Rudolph KLM, Karagianni P, ..., Marioni JC, Kutter C

Genome Res. 24 (11) 1797-1807 [2014-11-00; online 2014-08-13]

Claudia Kutter SciLifeLab Fellow

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Heparan sulfate in the regulation of neural differentiation and glioma development.

Xiong A, Kundu S, Forsberg-Nilsson K

FEBS J. 281 (22) 4993-5008 [2014-11-00; online 2014-11-06]

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Fat mass and obesity-associated gene (FTO) is linked to higher plasma levels of the hunger hormone ghrelin and lower serum levels of the satiety hormone leptin in older adults.

Benedict C, Axelsson T, Söderberg S, ..., Lind L, Schiöth HB

Diabetes 63 (11) 3955-3959 [2014-11-00; online 2014-06-04]

Affiliated researcher

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Evolution reveals a glutathione-dependent mechanism of 3-hydroxypropionic acid tolerance.

Kildegaard KR, Hallström BM, Blicher TH, ..., Nielsen J, Borodina I

Metab. Eng. 26 (-) 57-66 [2014-11-00; online 2014-09-28]

Affiliated researcher

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Defining the role of common variation in the genomic and biological architecture of adult human height.

Wood AR, Esko T, Yang J, ..., Hirschhorn JN, Frayling TM

Nat. Genet. 46 (11) 1173-1186 [2014-11-00; online 2014-10-05]

Affiliated researcher

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Defining the human gallbladder proteome by transcriptomics and affinity proteomics

Kampf C, Mardinoglu A, Fagerberg L, ..., Pontén F, Uhlen M

Proteomics 14 (21-22) 2498-2507 [2014-11-00; online 2014-10-09]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Clinical effect of stereotyped B-cell receptor immunoglobulins in chronic lymphocytic leukaemia: a retrospective multicentre study.

Baliakas P, Hadzidimitriou A, Sutton LA, ..., Ghia P, Stamatopoulos K

Lancet Haematol 1 (2) e74-e84 [2014-11-00; online 2014-11-03]

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Challenges in computational studies of enzyme structure, function and dynamics.

Carvalho AT, Barrozo A, Doron D, ..., Major DT, Kamerlin SC

J. Mol. Graph. Model. 54 (-) 62-79 [2014-11-00; online 2014-09-28]

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Binning metagenomic contigs by coverage and composition.

Alneberg J, Bjarnason BS, de Bruijn I, ..., Andersson AF, Quince C

Nat. Methods 11 (11) 1144-1146 [2014-11-00; online 2014-09-14]

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Abolished InsP3R2 function inhibits sweat secretion in both humans and mice.

Klar J, Hisatsune C, Baig SM, ..., Mikoshiba K, Dahl N

J. Clin. Invest. 124 (11) 4773-4780 [2014-11-00; online 2014-10-20]

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Haplotype-tag single nucleotide polymorphism analysis of the vesicular glutamate transporter (VGLUT) genes in severely alcoholic women.

Comasco E, Hallman J, Wallén-Mackenzie A

Psychiatry Res 219 (2) 403-405 [2014-10-30; online 2014-06-06]

Erika Comasco SciLifeLab Fellow

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Oncogenic signaling is dominant to cell of origin and dictates astrocytic or oligodendroglial tumor development from oligodendrocyte precursor cells.

Lindberg N, Jiang Y, Xie Y, ..., Holland EC, Uhrbom L

J. Neurosci. 34 (44) 14644-14651 [2014-10-29; online 2014-10-31]

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Designing a multimer allergen for diagnosis and immunotherapy of dog allergic patients.

Nilsson OB, Neimert-Andersson T, Bronge M, ..., van Hage M, Grönlund H

PLoS ONE 9 (10) e111041 [2014-10-29; online 2014-10-29]

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Ligand-based target prediction with signature fingerprints.

Alvarsson J, Eklund M, Engkvist O, ..., Wikberg JE, Noeske T

J Chem Inf Model 54 (10) 2647-2653 [2014-10-27; online 2014-10-03]

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Unexpected multiplicity of QRFP receptors in early vertebrate evolution.

Larhammar D, Xu B, Bergqvist CA

Front Neurosci 8 (-) 337 [2014-10-24; online 2014-10-24]

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Structure and mechanism of Zn2+-transporting P-type ATPases.

Wang K, Sitsel O, Meloni G, ..., Nissen P, Gourdon P

Nature 514 (7523) 518-522 [2014-10-23; online 2014-08-17]

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Genetic variation reveals large-scale population expansion and migration during the expansion of Bantu-speaking peoples.

Li S, Schlebusch C, Jakobsson M

Proc. Biol. Sci. 281 (1793) - [2014-10-22; online 2014-09-10]

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DCDC2 polymorphism is associated with left temporoparietal gray and white matter structures during development.

Darki F, Peyrard-Janvid M, Matsson H, Kere J, Klingberg T

J. Neurosci. 34 (43) 14455-14462 [2014-10-22; online 2014-10-24]

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Prognostic and treatment predictive significance of SATB1 and SATB2 expression in pancreatic and periampullary adenocarcinoma.

Elebro J, Heby M, Gaber A, ..., Jirström K, Eberhard J

J Transl Med 12 (-) 289 [2014-10-17; online 2014-10-17]

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Allelic expression mapping across cellular lineages to establish impact of non-coding SNPs.

Adoue V, Schiavi A, Light N, ..., Syvänen AC, Pastinen T

Mol Syst Biol 10 (-) 754 [2014-10-16; online 2014-10-16]

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Role of dietary fats in modulating cardiometabolic risk during moderate weight gain: a randomized double-blind overfeeding trial (LIPOGAIN study).

Iggman D, Rosqvist F, Larsson A, ..., Rudling M, Risérus U

J Am Heart Assoc 3 (5) e001095 [2014-10-15; online 2014-10-15]

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A comprehensive evaluation of the role of genetic variation in follicular lymphoma survival.

Baecklund F, Foo JN, Bracci P, ..., Skibola CF, Smedby KE

BMC Med. Genet. 15 (-) 113 [2014-10-08; online 2014-10-08]

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Prevalence, incidence, mortality and co-morbidities amongst human immunodeficiency virus (HIV) patients in Stockholm County, Sweden - the Greater Stockholm HIV Cohort Study.

Jallow A, Ljunggren G, Wändell P, Carlsson AC

AIDS Care 27 (2) 142-149 [2014-10-03; online 2014-10-03]

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Multi-species, multi-transcription factor binding highlights conserved control of tissue-specific biological pathways

Ballester B, Medina-Rivera A, Schmidt D, ..., Flicek P, Wilson MD

Elife 3 (-) - [2014-10-03; online 2014-10-03]

Claudia Kutter SciLifeLab Fellow

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Investigating the applicability of antibodies generated within the human protein atlas as capture agents in immunoenrichment coupled to mass spectrometry.

Boström T, Johansson HJ, Lehtiö J, Uhlén M, Hober S

J. Proteome Res. 13 (10) 4424-4435 [2014-10-03; online 2014-09-25]

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Crux: rapid open source protein tandem mass spectrometry analysis.

McIlwain S, Tamura K, Kertesz-Farkas A, ..., MacCoss MJ, Noble WS

J. Proteome Res. 13 (10) 4488-4491 [2014-10-03; online 2014-09-09]

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CanvasDB: a local database infrastructure for analysis of targeted- and whole genome re-sequencing projects.

Ameur A, Bunikis I, Enroth S, Gyllensten U

Database (Oxford) 2014 (-) - [2014-10-03; online 2014-10-03]

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Biofuels. Altered sterol composition renders yeast thermotolerant.

Caspeta L, Chen Y, Ghiaci P, ..., Petranovic D, Nielsen J

Science 346 (6205) 75-78 [2014-10-03; online 2014-10-02]

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Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche.

Perry JR, Day F, Elks CE, ..., Murabito JM, Ong KK

Nature 514 (7520) 92-97 [2014-10-02; online 2014-07-23]

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Wavefunction and reactivity study of benzo[a]pyrene diol epoxide and its enantiomeric forms

Lu T, Manzetti S

Struct Chem 25 (5) 1521-1533 [2014-10-00; online 2014-04-24]

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The human skeletal muscle transcriptome: sex differences, alternative splicing, and tissue homogeneity assessed with RNA sequencing.

Lindholm ME, Huss M, Solnestam BW, ..., Lundeberg J, Sundberg CJ

FASEB J. 28 (10) 4571-4581 [2014-10-00; online 2014-07-11]

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The effect of two endogenous retinoids on the mRNA expression profile in human primary keratinocytes, focusing on genes causing autosomal recessive congenital ichthyosis.

Törmä H, Bergström A, Ghiasifarahani G, Berne B

Arch. Dermatol. Res. 306 (8) 739-747 [2014-10-00; online 2014-06-13]

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The clinical pharmacogenetics implementation consortium guideline for SLCO1B1 and simvastatin-induced myopathy: 2014 update.

Ramsey LB, Johnson SG, Caudle KE, ..., Wadelius M, Niemi M

Clin. Pharmacol. Ther. 96 (4) 423-428 [2014-10-00; online 2014-06-11]

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Synthesis and preclinical evaluation of 68Ga-labeled collagelin analogs for imaging and quantification of fibrosis.

Velikyan I, Rosenström U, Estrada S, ..., Eriksson O, Antoni G

Nucl. Med. Biol. 41 (9) 728-736 [2014-10-00; online 2014-06-09]

Olof Eriksson SciLifeLab Fellow

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Specific targeting of human caspases using designed ankyrin repeat proteins.

Flütsch A, Schroeder T, Barandun J, ..., Bühlmann M, Grütter MG

Biol. Chem. 395 (10) 1243-1252 [2014-10-00; online 2014-08-26]

Jonas Barandun SciLifeLab Fellow

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Positron emission tomography ligand [11C]5-hydroxy-tryptophan can be used as a surrogate marker for the human endocrine pancreas.

Eriksson O, Espes D, Selvaraju RK, ..., Carlsson PO, Korsgren O

Diabetes 63 (10) 3428-3437 [2014-10-00; online 2014-05-21]

Olof Eriksson SciLifeLab Fellow

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Phenotype standardization of angioedema in the head and neck region caused by agents acting on the angiotensin system.

Wadelius M, Marshall SE, Islander G, ..., Hallberg P, Palmer CN

Clin. Pharmacol. Ther. 96 (4) 477-481 [2014-10-00; online 2014-06-24]

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Phenotype standardization for statin-induced myotoxicity.

Alfirevic A, Neely D, Armitage J, ..., Palmer CN, Pirmohamed M

Clin. Pharmacol. Ther. 96 (4) 470-476 [2014-10-00; online 2014-06-04]

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Persistent organic pollutants and liver dysfunction biomarkers in a population-based human sample of men and women.

Kumar J, Lind L, Salihovic S, ..., Ingelsson E, Lind PM

Environ. Res. 134 (-) 251-256 [2014-10-00; online 2014-08-29]

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Low levels of IgM antibodies against phosphorylcholine are associated with fast carotid intima media thickness progression and cardiovascular risk in men.

Gigante B, Leander K, Vikström M, ..., de Faire U, IMPROVE Study Group

Atherosclerosis 236 (2) 394-399 [2014-10-00; online 2014-08-05]

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Innate immune receptor NOD2 promotes vascular inflammation and formation of lipid-rich necrotic cores in hypercholesterolemic mice.

Johansson ME, Zhang XY, Edfeldt K, ..., Hansson GK, Yan ZQ

Eur. J. Immunol. 44 (10) 3081-3092 [2014-10-00; online 2014-08-25]

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Influence of persistent organic pollutants on the complement system in a population-based human sample.

Kumar J, Lind PM, Salihovic S, ..., Lind L, Ingelsson E

Environ Int 71 (-) 94-100 [2014-10-00; online 2014-07-02]

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In situ sequencing identifies TMPRSS2-ERG fusion transcripts, somatic point mutations and gene expression levels in prostate cancers.

Kiflemariam S, Mignardi M, Ali MA, ..., Nilsson M, Sjöblom T

J. Pathol. 234 (2) 253-261 [2014-10-00; online 2014-08-04]

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HemR is an OmpR/PhoB-like response regulator from Leptospira, which simultaneously effects transcriptional activation and repression of key haem metabolism genes.

Morero NR, Botti H, Nitta KR, ..., Picardeau M, Buschiazzo A

Mol. Microbiol. 94 (2) 340-352 [2014-10-00; online 2014-09-15]

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Evidence for autosomal recessive inheritance in SPG3A caused by homozygosity for a novel ATL1 missense mutation.

Khan TN, Klar J, Tariq M, ..., Baig SM, Dahl N

Eur. J. Hum. Genet. 22 (10) 1180-1184 [2014-10-00; online 2014-01-29]

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Effect of cardiovascular drugs on mortality in atrial fibrillation and chronic heart failure.

Wändell P, Carlsson AC, Sundquist J, ..., Bottai M, Sundquist K

Scand. Cardiovasc. J. 48 (5) 291-298 [2014-10-00; online 2014-08-06]

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Design of a general-purpose European compound screening library for EU-OPENSCREEN.

Horvath D, Lisurek M, Rupp B, ..., Quintana J, Frank R

ChemMedChem 9 (10) 2309-2326 [2014-10-00; online 2014-07-15]

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BRCA2 and RAD51 promote double-strand break formation and cell death in response to gemcitabine.

Jones RM, Kotsantis P, Stewart GS, Groth P, Petermann E

Mol. Cancer Ther. 13 (10) 2412-2421 [2014-10-00; online 2014-07-22]

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Amylase activity is associated with AMY2B copy numbers in dog: implications for dog domestication, diet and diabetes.

Arendt M, Fall T, Lindblad-Toh K, Axelsson E

Anim. Genet. 45 (5) 716-722 [2014-10-00; online 2014-06-28]

Affiliated researcher

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Acute sleep deprivation in healthy young men: impact on population diversity and function of circulating neutrophils.

Christoffersson G, Vågesjö E, Pettersson US, ..., Benedict C, Phillipson M

Brain Behav. Immun. 41 (-) 162-172 [2014-10-00; online 2014-05-28]

Gustaf Christoffersson SciLifeLab Fellow

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A worldwide survey of genome sequence variation provides insight into the evolutionary history of the honeybee Apis mellifera.

Wallberg A, Han F, Wellhagen G, ..., Pirk CW, Webster MT

Nat. Genet. 46 (10) 1081-1088 [2014-10-00; online 2014-08-24]

Affiliated researcher

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The Chironomus tentans genome sequence and the organization of the Balbiani ring genes.

Kutsenko A, Svensson T, Nystedt B, ..., Visa N, Wieslander L

BMC Genomics 15 (-) 819 [2014-09-27; online 2014-09-27]

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Skeletal muscle PGC-1α1 modulates kynurenine metabolism and mediates resilience to stress-induced depression.

Agudelo LZ, Femenía T, Orhan F, ..., Lindskog M, Ruas JL

Cell 159 (1) 33-45 [2014-09-25; online 2014-09-27]

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Glial origin of mesenchymal stem cells in a tooth model system.

Kaukua N, Shahidi MK, Konstantinidou C, ..., Fried K, Adameyko I

Nature 513 (7519) 551-554 [2014-09-25; online 2014-07-27]

Affiliated researcher

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Cell cycle: once out, never in again.

Jonas K

Curr. Biol. 24 (18) R841-R843 [2014-09-22; online 2014-09-24]

Kristina Jonas SciLifeLab Fellow

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Distinguishing between driver and passenger mutations in individual cancer genomes by network enrichment analysis.

Merid SK, Goranskaya D, Alexeyenko A

BMC Bioinformatics 15 (-) 308 [2014-09-19; online 2014-09-19]

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The genomic substrate for adaptive radiation in African cichlid fish.

Brawand D, Wagner CE, Li YI, ..., Seehausen O, Di Palma F

Nature 513 (7518) 375-381 [2014-09-18; online 2014-09-03]

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A universal approach to prepare reagents for DNA-assisted protein analysis.

Yan J, Gu GJ, Jost C, ..., Landegren U, Kamali-Moghaddam M

PLoS ONE 9 (9) e108061 [2014-09-18; online 2014-09-18]

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Aberrant methylation of tRNAs links cellular stress to neuro-developmental disorders

Blanco S, Dietmann S, Flores JV, ..., Odom DT, Frye M

The EMBO Journal 33 (18) 2020-2039 [2014-09-17; online 2014-07-25]

Claudia Kutter SciLifeLab Fellow

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MaxLink: network-based prioritization of genes tightly linked to a disease seed set.

Guala D, Sjölund E, Sonnhammer EL

Bioinformatics 30 (18) 2689-2690 [2014-09-15; online 2014-05-20]

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Stabilisation of amorphous ibuprofen in Upsalite, a mesoporous magnesium carbonate, as an approach to increasing the aqueous solubility of poorly soluble drugs.

Zhang P, Forsgren J, Strømme M

Int J Pharm 472 (1-2) 185-191 [2014-09-10; online 2014-06-17]

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Spontaneous transmembrane helix insertion thermodynamically mimics translocon-guided insertion.

Ulmschneider MB, Ulmschneider JP, Schiller N, ..., von Heijne G, White SH

Nat Commun 5 (-) 4863 [2014-09-10; online 2014-09-10]

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The prognostic value and therapeutic target role of stathmin-1 in urinary bladder cancer.

Hemdan T, Lindén M, Lind SB, ..., Malmström PU, Segersten U

Br. J. Cancer 111 (6) 1180-1187 [2014-09-09; online 2014-07-29]

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Antibiotic treatment selects for cooperative virulence of Salmonella typhimurium.

Diard M, Sellin ME, Dolowschiak T, ..., Ackermann M, Hardt WD

Curr. Biol. 24 (17) 2000-2005 [2014-09-08; online 2014-08-14]

Mikael Sellin SciLifeLab Fellow

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The Glanville fritillary genome retains an ancient karyotype and reveals selective chromosomal fusions in Lepidoptera.

Ahola V, Lehtonen R, Somervuo P, ..., Frilander MJ, Hanski I

Nat Commun 5 (-) 4737 [2014-09-05; online 2014-09-05]

Affiliated researcher

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Proteomics of neuropathic pain: proteins and signaling pathways affected in a rat model.

Sui P, Watanabe H, Ossipov MH, ..., Artemenko K, Bergquist J

J. Proteome Res. 13 (9) 3957-3965 [2014-09-05; online 2014-07-28]

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Predictive urinary biomarkers for steroid-resistant and steroid-sensitive focal segmental glomerulosclerosis using high resolution mass spectrometry and multivariate statistical analysis.

Kalantari S, Nafar M, Rutishauser D, ..., Yang H, Zubarev RA

BMC Nephrol 15 (-) 141 [2014-09-02; online 2014-09-02]

Affiliated researcher

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Vector-encoded Helicobacter pylori neutrophil-activating protein promotes maturation of dendritic cells with Th1 polarization and improved migration.

Ramachandran M, Jin C, Yu D, Eriksson F, Essand M

J. Immunol. 193 (5) 2287-2296 [2014-09-01; online 2014-07-21]

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Time course analysis of mechanical ventilation-induced diaphragm contractile muscle dysfunction in the rat.

Corpeno R, Dworkin B, Cacciani N, ..., Bergquist J, Larsson L

J. Physiol. (Lond.) 592 (17) 3859-3880 [2014-09-01; online 2014-07-11]

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PconsFold: improved contact predictions improve protein models.

Michel M, Hayat S, Skwark MJ, ..., Marks DS, Elofsson A

Bioinformatics 30 (17) i482-i488 [2014-09-01; online 2014-08-28]

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Metagenomics reveals that detoxification systems are underrepresented in marine bacterial communities.

Bengtsson-Palme J, Alm Rosenblad M, Molin M, Blomberg A

BMC Genomics 15 (-) 749 [2014-09-01; online 2014-09-01]

DDLS Fellow Johan Bengtsson-Palme

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High frequency of cytolytic 21-hydroxylase-specific CD8+ T cells in autoimmune Addison's disease patients.

Dawoodji A, Chen JL, Shepherd D, ..., Kämpe O, Cerundolo V

J. Immunol. 193 (5) 2118-2126 [2014-09-01; online 2014-07-25]

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Archaeal MBF1 binds to 30S and 70S ribosomes via its helix-turn-helix domain.

Blombach F, Launay H, Snijders AP, ..., Christodoulou J, van der Oost J

Biochem. J. 462 (2) 373-384 [2014-09-01; online 2014-05-16]

Affiliated researcher

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Altered expression of autoimmune regulator in infant down syndrome thymus, a possible contributor to an autoimmune phenotype.

Skogberg G, Lundberg V, Lindgren S, ..., Berglund M, Ekwall O

J. Immunol. 193 (5) 2187-2195 [2014-09-01; online 2014-07-18]

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Why is the biological hydrophobicity scale more accurate than earlier experimental hydrophobicity scales?

Peters C, Elofsson A

Proteins 82 (9) 2190-2198 [2014-09-00; online 2014-04-29]

Affiliated researcher

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Whole ARX gene duplication is compatible with normal intellectual development.

Popovici C, Busa T, Boute O, ..., Moncla A, Philip N

Am. J. Med. Genet. A 164A (9) 2324-2327 [2014-09-00; online 2014-07-07]

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The cellular thermal shift assay for evaluating drug target interactions in cells.

Jafari R, Almqvist H, Axelsson H, ..., Nordlund P, Martinez Molina D

Nat Protoc 9 (9) 2100-2122 [2014-09-00; online 2014-08-07]

Affiliated researcher

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Systematic validation of hypothesis-driven candidate genes for cervical cancer in a genome-wide association study.

Johanneson B, Chen D, Enroth S, Cui T, Gyllensten U

Carcinogenesis 35 (9) 2084-2088 [2014-09-00; online 2014-05-30]

Affiliated researcher

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Preferential activation by galanin 1–15 fragment of the GalR1 protomer of a GalR1–GalR2 heteroreceptor complex

Borroto-Escuela DO, Narvaez M, Di Palma M, ..., Díaz-Cabiale Z, Fuxe K

Biochemical and Biophysical Research Communications 452 (3) 347-353 [2014-09-00; online 2014-09-00]

Jens Carlsson SciLifeLab Fellow

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Positron emission tomography imaging of the glucagon-like peptide-1 receptor in healthy and streptozotocin-induced diabetic pigs.

Nalin L, Selvaraju RK, Velikyan I, ..., Eriksson O, Jensen-Waern M

Eur. J. Nucl. Med. Mol. Imaging 41 (9) 1800-1810 [2014-09-00; online 2014-03-19]

Olof Eriksson SciLifeLab Fellow

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Point-of-care vertical flow allergen microarray assay: proof of concept.

Chinnasamy T, Segerink LI, Nystrand M, Gantelius J, Andersson Svahn H

Clin. Chem. 60 (9) 1209-1216 [2014-09-00; online 2014-07-08]

Affiliated researcher

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Picocyanobacteria containing a novel pigment gene cluster dominate the brackish water Baltic Sea.

Larsson J, Celepli N, Ininbergs K, ..., Bergman B, Ekman M

ISME J 8 (9) 1892-1903 [2014-09-00; online 2014-03-13]

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Persistent organic pollutants and inflammatory markers in a cross-sectional study of elderly Swedish people: the PIVUS cohort.

Kumar J, Lind PM, Salihovic S, ..., Ingelsson E, Lind L

Environ. Health Perspect. 122 (9) 977-983 [2014-09-00; online 2014-05-23]

Affiliated researcher

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Mechanisms underlying mutational signatures in human cancers.

Helleday T, Eshtad S, Nik-Zainal S

Nat. Rev. Genet. 15 (9) 585-598 [2014-09-00; online 2014-07-01]

Affiliated researcher

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Investigating population history using temporal genetic differentiation.

Skoglund P, Sjödin P, Skoglund T, Lascoux M, Jakobsson M

Mol. Biol. Evol. 31 (9) 2516-2527 [2014-09-00; online 2014-06-17]

Affiliated researcher

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Injectable in situ forming hybrid iron oxide-hyaluronic acid hydrogel for magnetic resonance imaging and drug delivery.

Zhang Y, Sun Y, Yang X, ..., Heerschap A, Ossipov DA

Macromol Biosci 14 (9) 1249-1259 [2014-09-00; online 2014-05-23]

Affiliated researcher

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Genomic profiling reveals extensive heterogeneity in somatic DNA copy number aberrations of canine hemangiosarcoma.

Thomas R, Borst L, Rotroff D, ..., Modiano JF, Breen M

Chromosome Res. 22 (3) 305-319 [2014-09-00; online 2014-03-06]

Affiliated researcher

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Genome of the avirulent human-infective trypanosome--Trypanosoma rangeli.

Stoco PH, Wagner G, Talavera-Lopez C, ..., de Vasconcelos AT, Grisard EC

PLoS Negl Trop Dis 8 (9) e3176 [2014-09-00; online 2014-09-18]

Affiliated researcher

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Evidence for the Retention of Two Evolutionary Distinct Plastids in Dinoflagellates with Diatom Endosymbionts

Hehenberger E, Imanian B, Burki F, Keeling PJ

Genome Biol Evol 6 (9) 2321-2334 [2014-09-00; online 2014-08-28]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Emotional fronto-cingulate cortex activation and brain derived neurotrophic factor polymorphism in premenstrual dysphoric disorder.

Comasco E, Hahn A, Ganger S, ..., Lanzenberger R, Sundström-Poromaa I

Hum Brain Mapp 35 (9) 4450-4458 [2014-09-00; online 2014-02-25]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Dose-response relationship of total and leisure time physical activity to risk of heart failure: a prospective cohort study.

Andersen K, Mariosa D, Adami HO, ..., Bellocco R, Sundström J

Circ Heart Fail 7 (5) 701-708 [2014-09-00; online 2014-09-02]

Affiliated researcher

PubMed DOI Crossref

Diabetes and psychiatric illness in the total population of Stockholm.

Wändell P, Ljunggren G, Wahlström L, Carlsson AC

J Psychosom Res 77 (3) 169-173 [2014-09-00; online 2014-06-28]

Affiliated researcher

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Biomarkers: refining diagnosis and expediting drug development - reality, aspiration and the role of open innovation.

Salter H, Holland R

J. Intern. Med. 276 (3) 215-228 [2014-09-00; online 2014-03-28]

Affiliated researcher

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Bacterial nanoscale cultures for phenotypic multiplexed antibiotic susceptibility testing.

Weibull E, Antypas H, Kjäll P, ..., Andersson-Svahn H, Richter-Dahlfors A

J. Clin. Microbiol. 52 (9) 3310-3317 [2014-09-00; online 2014-07-02]

Affiliated researcher

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Association of vitamin D status with arterial blood pressure and hypertension risk: a mendelian randomisation study

Vimaleswaran KS, Cavadino A, Berry DJ, ..., Järvelin MR, Hyppönen E

The Lancet Diabetes & Endocrinology 2 (9) 719-729 [2014-09-00; online 2014-09-00]

Affiliated researcher

PubMed DOI Crossref

Accessing osteocyte lacunar geometrical properties in human jaw bone on the submicron length scale using synchrotron radiation μCT.

Hesse B, Männicke N, Pacureanu A, ..., Peyrin F, Raum K

J Microsc 255 (3) 158-168 [2014-09-00; online 2014-07-08]

Affiliated researcher

PubMed DOI Crossref

Splicing in the human brain.

Zaghlool A, Ameur A, Cavelier L, Feuk L

Int. Rev. Neurobiol. 116 (-) 95-125 [2014-08-31; online 2014-08-31]

Affiliated researcher

PubMed DOI Crossref

Temporal trends in incidence of myocardial infarction and ischemic stroke by socioeconomic position in Sweden 1987-2010.

Malki N, Koupil I, Eloranta S, ..., Ingelsson E, Sparén P

PLoS ONE 9 (8) e105279 [2014-08-29; online 2014-08-29]

Affiliated researcher

PubMed DOI Crossref

Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication.

Carneiro M, Rubin CJ, Di Palma F, ..., Lindblad-Toh K, Andersson L

Science 345 (6200) 1074-1079 [2014-08-29; online 2014-08-30]

Affiliated researcher

PubMed DOI Crossref

Deep amplicon sequencing of preselected isolates of Parascaris equorum in β-tubulin codons associated with benzimidazole resistance in other nematodes.

Tydén E, Dahlberg J, Karlberg O, Höglund J

Parasit Vectors 7 (-) 410 [2014-08-29; online 2014-08-29]

Affiliated researcher

PubMed DOI Crossref

Inhibition of glutamine synthetase: a potential drug target in Mycobacterium tuberculosis.

Mowbray SL, Kathiravan MK, Pandey AA, Odell LR

Molecules 19 (9) 13161-13176 [2014-08-26; online 2014-08-26]

Affiliated researcher

PubMed DOI Crossref

Lack of evidence for a role of islet autoimmunity in the aetiology of canine diabetes mellitus.

Ahlgren KM, Fall T, Landegren N, ..., Lernmark Å, Kämpe O

PLoS ONE 9 (8) e105473 [2014-08-25; online 2014-08-25]

Affiliated researcher

PubMed DOI Crossref

Strong effects of genetic and lifestyle factors on biomarker variation and use of personalized cutoffs.

Enroth S, Johansson A, Enroth SB, Gyllensten U

Nat Commun 5 (-) 4684 [2014-08-22; online 2014-08-22]

Affiliated researcher

PubMed DOI Crossref

Small RNA sequence analysis of adenovirus VA RNA-derived miRNAs reveals an unexpected serotype-specific difference in structure and abundance.

Kamel W, Segerman B, Punga T, Akusjärvi G

PLoS ONE 9 (8) e105746 [2014-08-21; online 2014-08-21]

Affiliated researcher

PubMed DOI Crossref

Missing genes, multiple ORFs, and C-to-U type RNA editing in Acrasis kona (Heterolobosea, Excavata) mitochondrial DNA.

Fu CJ, Sheikh S, Miao W, Andersson SG, Baldauf SL

Genome Biol Evol 6 (9) 2240-2257 [2014-08-21; online 2014-08-21]

Affiliated researcher

PubMed DOI Crossref

Circle-to-circle amplification on a digital microfluidic chip for amplified single molecule detection.

Kühnemund M, Witters D, Nilsson M, Lammertyn J

Lab Chip 14 (16) 2983-2992 [2014-08-21; online 2014-06-17]

Affiliated researcher

PubMed DOI Crossref

Winter bloom of a rare betaproteobacterium in the Arctic Ocean.

Alonso-Sáez L, Zeder M, Harding T, ..., Bertilsson S, Pedrós-Alió C

Front Microbiol 5 (-) 425 [2014-08-20; online 2014-08-20]

Affiliated researcher

PubMed DOI Crossref

Understanding functional miRNA-target interactions in vivo by site-specific genome engineering.

Bassett AR, Azzam G, Wheatley L, ..., Sauka-Spengler T, Fulga TA

Nat Commun 5 (-) 4640 [2014-08-19; online 2014-08-19]

Affiliated researcher

PubMed DOI Crossref

Meta-analysis in more than 17,900 cases of ischemic stroke reveals a novel association at 12q24.12.

Kilarski LL, Achterberg S, Devan WJ, ..., Bevan S, GARNET Collaborative Research Group, Wellcome Trust Case Control Consortium 2, Australian Stroke Genetic Collaborative, the METASTROKE Consortium, and the International Stroke Genetics Consortium

Neurology 83 (8) 678-685 [2014-08-19; online 2014-07-16]

Affiliated researcher

PubMed DOI Crossref

Tandem RNA chimeras contribute to transcriptome diversity in human population and are associated with intronic genetic variants.

Greger L, Su J, Rung J, ..., Dermitzakis ET, Brazma A

PLoS ONE 9 (8) e104567 [2014-08-18; online 2014-08-18]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Fine-tuning of Smad protein function by poly(ADP-ribose) polymerases and poly(ADP-ribose) glycohydrolase during transforming growth factor β signaling.

Dahl M, Maturi V, Lönn P, ..., Heldin CH, Moustakas A

PLoS ONE 9 (8) e103651 [2014-08-18; online 2014-08-18]

Affiliated researcher

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Evaluation of exome sequencing to estimate tumor burden in plasma.

Klevebring D, Neiman M, Sundling S, ..., Grönberg H, Lindberg J

PLoS ONE 9 (8) e104417 [2014-08-18; online 2014-08-18]

Affiliated researcher

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The dog as a genetic model for immunoglobulin A (IgA) deficiency: identification of several breeds with low serum IgA concentrations.

Olsson M, Frankowiack M, Tengvall K, ..., Lindblad-Toh K, Hammarström L

Vet. Immunol. Immunopathol. 160 (3-4) 255-259 [2014-08-15; online 2014-05-27]

Affiliated researcher

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Immunogenetic studies of chronic lymphocytic leukemia: revelations and speculations about ontogeny and clinical evolution.

Vardi A, Agathangelidis A, Sutton LA, ..., Rosenquist R, Stamatopoulos K

Cancer Res. 74 (16) 4211-4216 [2014-08-15; online 2014-07-29]

Affiliated researcher

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Fibrin binds to collagen and provides a bridge for αVβ3 integrin-dependent contraction of collagen gels.

Reyhani V, Seddigh P, Guss B, ..., Rask L, Rubin K

Biochem. J. 462 (1) 113-123 [2014-08-15; online 2014-05-21]

Affiliated researcher

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Characterisation of novel microRNAs in the Black flying fox (Pteropus alecto) by deep sequencing.

Cowled C, Stewart CR, Likic VA, ..., Bean AG, Wang LF

BMC Genomics 15 (1) 682 [2014-08-15; online 2014-08-15]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

BESST--efficient scaffolding of large fragmented assemblies.

Sahlin K, Vezzi F, Nystedt B, Lundeberg J, Arvestad L

BMC Bioinformatics 15 (1) 281 [2014-08-15; online 2014-08-15]

Affiliated researcher Kristoffer Sahlin SciLifeLab Fellow

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Synthesis of P1'-functionalized macrocyclic transition-state mimicking HIV-1 protease inhibitors encompassing a tertiary alcohol.

De Rosa M, Unge J, Motwani HV, ..., Wallberg H, Larhed M

J. Med. Chem. 57 (15) 6444-6457 [2014-08-14; online 2014-08-01]

Affiliated researcher

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Histone H4 tail mediates allosteric regulation of nucleosome remodelling by linker DNA.

Hwang WL, Deindl S, Harada BT, Zhuang X

Nature 512 (7513) 213-217 [2014-08-14; online 2014-06-29]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

The positive inside rule is stronger when followed by a transmembrane helix.

Virkki MT, Peters C, Nilsson D, ..., Wallner B, Elofsson A

J. Mol. Biol. 426 (16) 2982-2991 [2014-08-12; online 2014-06-10]

Affiliated researcher

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Eye movements in ephedrone-induced parkinsonism.

Bonnet C, Rusz J, Megrelishvili M, ..., Gaymard B, Růžička E

PLoS ONE 9 (8) e104784 [2014-08-12; online 2014-08-12]

Affiliated researcher

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A simple repeat polymorphism in the MITF-M promoter is a key regulator of white spotting in dogs.

Baranowska Körberg I, Sundström E, Meadows JR, ..., Andersson G, Andersson L

PLoS ONE 9 (8) e104363 [2014-08-12; online 2014-08-12]

Affiliated researcher

PubMed DOI Crossref

A Solvent-Mediated Coarse-Grained Model of DNA Derived with the Systematic Newton Inversion Method.

Naômé A, Laaksonen A, Vercauteren DP

J Chem Theory Comput 10 (8) 3541-3549 [2014-08-12; online 2014-08-12]

Affiliated researcher

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A subdivided molecular architecture with separate features and stepwise emergence among proinsulin C-peptides.

Landreh M, Ostberg LJ, Jörnvall H

Biochem. Biophys. Res. Commun. 450 (4) 1433-1438 [2014-08-08; online 2014-07-10]

Affiliated researcher

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Urinary kidney injury molecule-1 and the risk of cardiovascular mortality in elderly men.

Carlsson AC, Larsson A, Helmersson-Karlqvist J, ..., Sundström J, Ärnlöv J

Clin J Am Soc Nephrol 9 (8) 1393-1401 [2014-08-07; online 2014-06-12]

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A whole-brain atlas of inputs to serotonergic neurons of the dorsal and median raphe nuclei.

Pollak Dorocic I, Fürth D, Xuan Y, ..., Carlén M, Meletis K

Neuron 83 (3) 663-678 [2014-08-06; online 2014-08-08]

Iskra Pollak Dorocic SciLifeLab Fellow

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Single-particle tracking reveals that free ribosomal subunits are not excluded from the Escherichia coli nucleoid.

Sanamrad A, Persson F, Lundius EG, ..., Gynnå AH, Elf J

Proc. Natl. Acad. Sci. U.S.A. 111 (31) 11413-11418 [2014-08-05; online 2014-07-23]

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Differences in gene expression between mouse and human for dynamically regulated genes in early embryo.

Madissoon E, Töhönen V, Vesterlund L, ..., Hovatta O, Kere J

PLoS ONE 9 (8) e102949 [2014-08-04; online 2014-08-04]

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HAS2 and CD44 in breast tumorigenesis.

Heldin P, Basu K, Kozlova I, Porsch H

Adv. Cancer Res. 123 (-) 211-229 [2014-08-02; online 2014-08-02]

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Inhibition of tumor-derived prostaglandin-e2 blocks the induction of myeloid-derived suppressor cells and recovers natural killer cell activity.

Mao Y, Sarhan D, Steven A, ..., Kiessling R, Lundqvist A

Clin. Cancer Res. 20 (15) 4096-4106 [2014-08-01; online 2014-06-06]

SciLifeLab Fellow Yumeng Mao

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High- and low-throughput scoring of fat mass and body fat distribution in C. elegans.

Wählby C, Conery AL, Bray MA, ..., Carpenter AE, O'Rourke EJ

Methods 68 (3) 492-499 [2014-08-01; online 2014-04-28]

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Analysis of candidate genes for lineage-specific expression changes in humans and primates.

Lindskog C, Kuhlwilm M, Davierwala A, ..., Pääbo S, Pontén F

J. Proteome Res. 13 (8) 3596-3606 [2014-08-01; online 2014-07-15]

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Tumour-induced immune suppression: role of inflammatory mediators released by myelomonocytic cells.

Mao Y, Poschke I, Kiessling R

J. Intern. Med. 276 (2) 154-170 [2014-08-00; online 2014-03-24]

SciLifeLab Fellow Yumeng Mao

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Treatment of osteogenesis imperfecta in adults.

Lindahl K, Langdahl B, Ljunggren Ö, Kindmark A

Eur. J. Endocrinol. 171 (2) R79-R90 [2014-08-00; online 2014-04-23]

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Transforming growth factor-β-induced lncRNA-Smad7 inhibits apoptosis of mouse breast cancer JygMC(A) cells.

Arase M, Horiguchi K, Ehata S, ..., Miyazono K, Koinuma D

Cancer Sci. 105 (8) 974-982 [2014-08-00; online 2014-07-25]

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The PARP inhibitor Olaparib disrupts base excision repair of 5-aza-2'-deoxycytidine lesions.

Orta ML, Höglund A, Calderón-Montaño JM, ..., López-lázaro M, Helleday T

Nucleic Acids Res. 42 (14) 9108-9120 [2014-08-00; online 2014-07-29]

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TGFβ and matrix-regulated epithelial to mesenchymal transition.

Moustakas A, Heldin P

Biochim. Biophys. Acta 1840 (8) 2621-2634 [2014-08-00; online 2014-02-18]

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Systematic investigation of contribution of genetic variation in the HLA-DP region to cervical cancer susceptibility.

Chen D, Gyllensten U

Carcinogenesis 35 (8) 1765-1769 [2014-08-00; online 2014-04-17]

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Structure-Based Discovery of Selective Serotonin 5-HT 1B Receptor Ligands

Rodríguez D, Brea J, Loza MI, Carlsson J

Structure 22 (8) 1140-1151 [2014-08-00; online 2014-08-00]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Spatial control of membrane receptor function using ligand nanocalipers.

Shaw A, Lundin V, Petrova E, ..., Högberg B, Teixeira AI

Nat. Methods 11 (8) 841-846 [2014-08-00; online 2014-07-06]

Erik Benson SciLifeLab Fellow

PubMed DOI Crossref

Self-healing hybrid nanocomposites consisting of bisphosphonated hyaluronan and calcium phosphate nanoparticles.

Nejadnik MR, Yang X, Bongio M, ..., Ossipov D, Leeuwenburgh SC

Biomaterials 35 (25) 6918-6929 [2014-08-00; online 2014-05-24]

Affiliated researcher

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Plasma profiling reveals three proteins associated to amyotrophic lateral sclerosis.

Häggmark A, Mikus M, Mohsenchian A, ..., Kuźma-Kozakiewicz M, Nilsson P

Ann Clin Transl Neurol 1 (8) 544-553 [2014-08-00; online 2014-07-14]

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Mechanistic understanding of brain drug disposition to optimize the selection of potential neurotherapeutics in drug discovery.

Loryan I, Sinha V, Mackie C, ..., Heald D, Hammarlund-Udenaes M

Pharm. Res. 31 (8) 2203-2219 [2014-08-00; online 2014-03-13]

Affiliated researcher

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Mass spectrometry-based plasma proteomics: state of the art and future outlook.

Pernemalm M, Lehtiö J

Expert Rev Proteomics 11 (4) 431-448 [2014-08-00; online 2014-03-24]

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MDM2 promotor polymorphism and disease characteristics in chronic lymphocytic leukemia: results of an individual patient data-based meta-analysis.

Benner A, Mansouri L, Rossi D, ..., Zenz T, European Research Initiative on CLL (ERIC)

Haematologica 99 (8) 1285-1291 [2014-08-00; online 2014-08-02]

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Influence of coronary artery disease-associated genetic variants on risk of venous thromboembolism.

Bruzelius M, Strawbridge RJ, Trégouët DA, ..., Odeberg J, Hamsten A

Thromb. Res. 134 (2) 426-432 [2014-08-00; online 2014-04-04]

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Identification of novel sphingolipid-binding motifs in mammalian membrane proteins.

Björkholm P, Ernst AM, Hacke M, ..., Brügger B, von Heijne G

Biochim. Biophys. Acta 1838 (8) 2066-2070 [2014-08-00; online 2014-05-02]

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Identification of a duplication within the GDF9 gene and novel candidate genes for primary ovarian insufficiency (POI) by a customized high-resolution array comparative genomic hybridization platform.

Norling A, Hirschberg AL, Rodriguez-Wallberg KA, ..., Wedell A, Barbaro M

Hum. Reprod. 29 (8) 1818-1827 [2014-08-00; online 2014-06-17]

Affiliated researcher

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Genetic variation in the CYP1A1 gene is related to circulating PCB118 levels in a population-based sample.

Lind L, Penell J, Syvänen AC, ..., van Bavel B, Lind PM

Environ. Res. 133 (-) 135-140 [2014-08-00; online 2014-06-11]

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Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization.

Arking DE, Pulit SL, Crotti L, ..., de Bakker PI, Newton-Cheh C

Nat. Genet. 46 (8) 826-836 [2014-08-00; online 2014-06-22]

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DOI Crossref

From Side Chains Rattling on Picoseconds to Ensemble Simulations of Protein Folding

Larsson P, Pouya I, Lindahl E

Isr. J. Chem. 54 (8-9) 1274-1285 [2014-08-00; online 2014-08-11]

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Epithelium-Intrinsic NAIP/NLRC4 Inflammasome Drives Infected Enterocyte Expulsion to Restrict Salmonella Replication in the Intestinal Mucosa

Sellin ME, Müller AA, Felmy B, ..., Maslowski KM, Hardt WD

Cell Host & Microbe 16 (2) 237-248 [2014-08-00; online 2014-08-00]

Mikael Sellin SciLifeLab Fellow

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Developmentally regulated collagen/integrin interactions confer adhesive properties to early postnatal neural stem cells.

Bergström T, Holmqvist K, Tararuk T, Johansson S, Forsberg-Nilsson K

Biochim. Biophys. Acta 1840 (8) 2526-2532 [2014-08-00; online 2014-01-23]

Affiliated researcher

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DegePrime, a program for degenerate primer design for broad-taxonomic-range PCR in microbial ecology studies.

Hugerth LW, Wefer HA, Lundin S, ..., Engstrand L, Andersson AF

Applied and environmental microbiology 80 (16) 5116-5123 [2014-08-00; online 2014-06-13]

Affiliated researcher DDLS Fellow Luisa Hugerth

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Advances in GPCR Modeling Evaluated by the GPCR Dock 2013 Assessment: Meeting New Challenges

Kufareva I, Katritch V, Stevens RC, Abagyan R

Structure 22 (8) 1120-1139 [2014-08-00; online 2014-08-00]

Jens Carlsson SciLifeLab Fellow

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A cis-regulatory mutation of PDSS2 causes silky-feather in chickens.

Feng C, Gao Y, Dorshorst B, ..., Hu X, Li N

PLoS Genet 10 (8) e1004576 [2014-08-00; online 2014-08-28]

Affiliated researcher

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A simple metric of promoter architecture robustly predicts expression breadth of human genes suggesting that most transcription factors are positive regulators.

Hurst LD, Sachenkova O, Daub C, ..., Huminiecki L, FANTOM consortium

Genome Biol. 15 (7) 413 [2014-07-31; online 2014-07-31]

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Nuclease-assisted suppression of human DNA background in sepsis.

Song Y, Giske CG, Gille-Johnson P, ..., Lundeberg J, Gyarmati P

PLoS ONE 9 (7) e103610 [2014-07-30; online 2014-07-30]

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Strategies for Improved Modeling of GPCR-Drug Complexes: Blind Predictions of Serotonin Receptors Bound to Ergotamine

Rodríguez D, Ranganathan A, Carlsson J

J. Chem. Inf. Model. 54 (7) 2004-2021 [2014-07-28; online 2014-07-17]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Analysis of stranded information using an automated procedure for strand specific RNA sequencing.

Sigurgeirsson B, Emanuelsson O, Lundeberg J

BMC Genomics 15 (-) 631 [2014-07-28; online 2014-07-28]

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On-chip detection of rolling circle amplified DNA molecules from Bacillus globigii spores and Vibrio cholerae.

Østerberg FW, Rizzi G, Donolato M, ..., Svedlindh P, Hansen MF

Small 10 (14) 2877-2882 [2014-07-23; online 2014-03-10]

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Overexpression of sigma factor SigB improves temperature and butanol tolerance of Synechocystis sp. PCC6803.

Kaczmarzyk D, Anfelt J, Särnegrim A, Hudson EP

J. Biotechnol. 182-183 (-) 54-60 [2014-07-20; online 2014-05-05]

Paul Hudson SciLifeLab Fellow

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An automated mass spectrometry-based screening method for analysis of sulfated glycosaminoglycans.

Kiselova N, Dierker T, Spillmann D, Ramström M

Biochem. Biophys. Res. Commun. 450 (1) 598-603 [2014-07-18; online 2014-06-10]

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The effect of mini-PEG-based spacer length on binding and pharmacokinetic properties of a 68Ga-labeled NOTA-conjugated antagonistic analog of bombesin.

Varasteh Z, Rosenström U, Velikyan I, ..., Tolmachev V, Orlova A

Molecules 19 (7) 10455-10472 [2014-07-17; online 2014-07-17]

Affiliated researcher

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Single nucleotide polymorphisms with cis-regulatory effects on long non-coding transcripts in human primary monocytes.

Almlöf JC, Lundmark P, Lundmark A, ..., Ouwehand WH, Syvänen AC

PLoS ONE 9 (7) e102612 [2014-07-15; online 2014-07-15]

Affiliated researcher

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Measuring lipid packing of model and cellular membranes with environment sensitive probes.

Sezgin E, Sadowski T, Simons K

Langmuir 30 (27) 8160-8166 [2014-07-15; online 2014-06-30]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Genome-wide profiling of AP-1-regulated transcription provides insights into the invasiveness of triple-negative breast cancer.

Zhao C, Qiao Y, Jonsson P, ..., Williams C, Dahlman-Wright K

Cancer Res. 74 (14) 3983-3994 [2014-07-15; online 2014-05-15]

Affiliated researcher

DOI Crossref

The molecular mode of action of the active component of chili pepper

Elokely K, Palovcak E, Delemotte L, Carnevale V, Klein M

Planta Med 80 (10) - [2014-07-14; online 2014-07-14]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Computational prediction of hinge axes in proteins.

Shamsuddin R, Doktorova M, Jaswal S, Lee-St John A, McMenimen K

BMC Bioinformatics 15 Suppl 8 (Suppl 8) S2 [2014-07-14; online 2014-07-14]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Platelet-derived growth factor β-receptor, transforming growth factor β type I receptor, and CD44 protein modulate each other's signaling and stability.

Porsch H, Mehić M, Olofsson B, Heldin P, Heldin CH

J. Biol. Chem. 289 (28) 19747-19757 [2014-07-11; online 2014-05-23]

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A dedicated database system for handling multi-level data in systems biology.

Pornputtapong N, Wanichthanarak K, Nilsson A, Nookaew I, Nielsen J

Source Code Biol Med 9 (-) 17 [2014-07-10; online 2014-07-10]

Avlant Nilsson DDLS Fellow

PubMed DOI Crossref

Proline N-oxides: modulators of the 3D conformation of linear peptides through "NO-turns".

Farahani MD, Honarparvar B, Albericio F, ..., Arvidsson PI, Kruger HG

Org. Biomol. Chem. 12 (25) 4479-4490 [2014-07-07; online 2014-05-23]

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Transdifferentiation of autologous bone marrow cells on a collagen-poly(ε-caprolactone) scaffold for tissue engineering in complete lack of native urothelium.

Zhao J, Zeiai S, Ekblad A, ..., Götherström C, Fossum M

J R Soc Interface 11 (96) 20140233 [2014-07-06; online 2014-04-30]

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Sequencing of breast cancer stem cell populations indicates a dynamic conversion between differentiation states in vivo.

Klevebring D, Rosin G, Ma R, ..., Bergh J, Hartman J

Breast Cancer Res. 16 (4) R72 [2014-07-06; online 2014-07-06]

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Increased C-telopeptide cross-linking of tendon type I collagen in fibromodulin-deficient mice.

Kalamajski S, Liu C, Tillgren V, ..., Weis M, Eyre DR

J. Biol. Chem. 289 (27) 18873-18879 [2014-07-04; online 2014-05-21]

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The influence of smoking and impaired glucose homoeostasis on the outcome in patients presenting with an acute coronary syndrome: a cross-sectional study.

Odeberg J, Freitag M, Forssell H, ..., Råstam L, Lindblad U

BMJ Open 4 (7) e005077 [2014-07-03; online 2014-07-03]

Affiliated researcher

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The archaeal legacy of eukaryotes: a phylogenomic perspective.

Guy L, Saw JH, Ettema TJ

Cold Spring Harbor Perspectives in Biology 6 (10) a016022 [2014-07-03; online 2014-07-03]

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Transcriptome analysis reveals signature of adaptation to landscape fragmentation.

Somervuo P, Kvist J, Ikonen S, ..., Ahola V, Hanski I

PLoS ONE 9 (7) e101467 [2014-07-02; online 2014-07-02]

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Peptide-independent stabilization of MHC class I molecules breaches cellular quality control.

Hein Z, Uchtenhagen H, Abualrous ET, ..., Springer S, Boulanger D

J. Cell. Sci. 127 (Pt 13) 2885-2897 [2014-07-01; online 2014-05-07]

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Large-scale genome-wide association studies and meta-analyses of longitudinal change in adult lung function.

Tang W, Kowgier M, Loth DW, ..., Hall IP, Cassano PA

PLoS ONE 9 (7) e100776 [2014-07-01; online 2014-07-01]

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Insecticide resistance in disease vectors from Mayotte: an opportunity for integrated vector management.

Pocquet N, Darriet F, Zumbo B, ..., Labbé P, Chandre F

Parasit Vectors 7 (-) 299 [2014-07-01; online 2014-07-01]

Pascal Milesi SciLifeLab Fellow

DOI Crossref

l-Proline organocatalyzed Michael synthesis of monobactam and carbapenem β-lactam cores

Khanyase S, Naicker T, Maguire GEM, ..., Arvidsson PI, Govender T

Tetrahedron: Asymmetry 25 (13-14) 969-973 [2014-07-00; online 2014-07-00]

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The use of Genome-scale metabolic models for drug target and biomarker identification

Mardinoglu A, Uhlen M, Nielsen J

New Biotechnology 31 (-) S49 [2014-07-00; online 2014-07-00]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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The impact of linked selection on plant genomic variation.

Slotte T

Briefings in Functional Genomics 13 (4) 268-275 [2014-07-00; online 2014-04-23]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

The human liver-specific proteome defined by transcriptomics and antibody-based profiling

Kampf C, Mardinoglu A, Fagerberg L, ..., Nielsen J, Uhlen M

The FASEB Journal 28 (7) 2901-2914 [2014-07-00; online 2014-07-00]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Serum selenium in relation to measures of glucose metabolism and incidence of Type 2 diabetes in an older Swedish population.

Gao H, Hägg S, Sjögren P, ..., Ingelsson E, van Dam RM

Diabet. Med. 31 (7) 787-793 [2014-07-00; online 2014-03-28]

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SIRT1 promoter polymorphisms as clinical modifiers on systemic lupus erythematosus.

Consiglio CR, Juliana da Silveira S, Monticielo OA, ..., Brenol JC, Chies JA

Mol. Biol. Rep. 41 (7) 4233-4239 [2014-07-00; online 2014-02-26]

Camila Consiglio DDLS Fellow

PubMed DOI Crossref

Pre-clinical evaluation of [(68)Ga]Ga-DO3A-VS-Cys(40)-Exendin-4 for imaging of insulinoma.

Selvaraju RK, Velikyan I, Asplund V, ..., Korsgren O, Eriksson O

Nucl. Med. Biol. 41 (6) 471-476 [2014-07-00; online 2014-03-29]

Olof Eriksson SciLifeLab Fellow

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Microsatellite polymorphism in the heme oxygenase-1 promoter is associated with nonsevere and late-onset preeclampsia.

Kaartokallio T, Klemetti MM, Timonen A, ..., Lakkisto P, Laivuori H

Hypertension 64 (1) 172-177 [2014-07-00; online 2014-05-05]

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Microfluidics for nano-pathophysiology.

Sato K, Sasaki N, Svahn HA, Sato K

Adv. Drug Deliv. Rev. 74 (-) 115-121 [2014-07-00; online 2013-08-31]

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Intranasal delivery of central nervous system-retargeted human mesenchymal stromal cells prolongs treatment efficacy of experimental autoimmune encephalomyelitis.

Fransson M, Piras E, Wang H, ..., Brittebo E, Loskog AS

Immunology 142 (3) 431-441 [2014-07-00; online 2014-03-05]

Affiliated researcher

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Improving ITS sequence data for identification of plant pathogenic fungi

Nilsson RH, Hyde KD, Pawłowska J, ..., Kõljalg U, Abarenkov K

Fungal Diversity 67 (1) 11-19 [2014-07-00; online 2014-05-15]

DDLS Fellow Johan Bengtsson-Palme

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Hijacking of host calreticulin is required for the white spot syndrome virus replication cycle.

Watthanasurorot A, Guo E, Tharntada S, ..., Söderhäll K, Söderhäll I

J. Virol. 88 (14) 8116-8128 [2014-07-00; online 2014-05-07]

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Genome-wide identification of transcript start and end sites by transcript isoform sequencing

Pelechano V, Wei W, Jakob P, Steinmetz LM

Nat Protoc 9 (7) 1740-1759 [2014-07-00; online 2014-06-26]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Genome-wide association analysis identifies six new loci associated with forced vital capacity.

Loth DW, Soler Artigas M, Gharib SA, ..., Tobin MD, London SJ

Nat. Genet. 46 (7) 669-677 [2014-07-00; online 2014-06-15]

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GENE-dosage effects on fitness in recent adaptive duplications: ace-1 in the mosquito Culex pipiens.

Labbé P, Milesi P, Yébakima A, ..., Weill M, Lenormand T

Evolution 68 (7) 2092-2101 [2014-07-00; online 2014-03-20]

Pascal Milesi SciLifeLab Fellow

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Forensic informativity of ~3000 bp of coding sequence of domestic dog mtDNA.

Angleby H, Oskarsson M, Pang J, ..., Webb KM, Savolainen P

J. Forensic Sci. 59 (4) 898-908 [2014-07-00; online 2014-05-11]

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Folding of Aquaporin 1: multiple evidence that helix 3 can shift out of the membrane core.

Virkki MT, Agrawal N, Edsbäcker E, ..., Elofsson A, Kauko A

Protein Sci. 23 (7) 981-992 [2014-07-00; online 2014-05-14]

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Deleterious mutation in FDX1L gene is associated with a novel mitochondrial muscle myopathy.

Spiegel R, Saada A, Halvardson J, ..., Feuk L, Elpeleg O

Eur. J. Hum. Genet. 22 (7) 902-906 [2014-07-00; online 2013-11-27]

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Constructs of electrospun PLGA, compressed collagen and minced urothelium for minimally manipulated autologous bladder tissue expansion.

Ajalloueian F, Zeiai S, Fossum M, Hilborn JG

Biomaterials 35 (22) 5741-5748 [2014-07-00; online 2014-04-24]

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CXCR4 Antagonists: A Screening Strategy for Identification of Functionally Selective Ligands.

Castaldo C, Benicchi T, Otrocka M, ..., Varrone M, Porcari V

J Biomol Screen 19 (6) 859-869 [2014-07-00; online 2014-03-14]

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BioMet Toolbox 2.0: genome-wide analysis of metabolism and omics data.

Garcia-Albornoz M, Thankaswamy-Kosalai S, Nilsson A, ..., Nookaew I, Nielsen J

Nucleic Acids Res. 42 (Web Server issue) W175-W181 [2014-07-00; online 2014-05-03]

Avlant Nilsson DDLS Fellow

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Affinity proteomics within rare diseases: a BIO-NMD study for blood biomarkers of muscular dystrophies.

Ayoglu B, Chaouch A, Lochmüller H, ..., Nilsson P, Al-Khalili Szigyarto C

EMBO Mol Med 6 (7) 918-936 [2014-07-00; online 2014-06-13]

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A pragmatic definition of therapeutic synergy suitable for clinically relevant in vitro multicompound analyses.

Kashif M, Andersson C, Åberg M, ..., Larsson R, Gustafsson MG

Mol. Cancer Ther. 13 (7) 1964-1976 [2014-07-00; online 2014-04-22]

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A constrained multi-objective surrogate-based optimization algorithm

Singh P, Couckuyt I, Ferranti F, Dhaene T

- - (-) - [2014-07-00; online 2014-07-00]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Synthesis and labeling of a piperazine-based library of ¹¹C-labeled ligands for imaging of the vesicular acetylcholine transporter.

Bergman S, Estrada S, Hall H, ..., Wångsell F, Antoni G

J Labelled Comp Radiopharm 57 (8) 525-532 [2014-06-30; online 2014-07-03]

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A universal genomic coordinate translator for comparative genomics.

Zamani N, Sundström G, Meadows JR, ..., Haas BJ, Grabherr MG

BMC Bioinformatics 15 (-) 227 [2014-06-30; online 2014-06-30]

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SETD2-dependent histone H3K36 trimethylation is required for homologous recombination repair and genome stability.

Pfister SX, Ahrabi S, Zalmas LP, ..., Porter AC, Humphrey TC

Cell Reports 7 (6) 2006-2018 [2014-06-26; online 2014-06-12]

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Large tilts in transmembrane helices can be induced during tertiary structure formation.

Virkki M, Boekel C, Illergård K, ..., von Heijne G, Nilsson I

J. Mol. Biol. 426 (13) 2529-2538 [2014-06-26; online 2014-04-30]

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Boolean ErbB network reconstructions and perturbation simulations reveal individual drug response in different breast cancer cell lines.

von der Heyde S, Bender C, Henjes F, ..., Korf U, Beißbarth T

BMC Syst Biol 8 (-) 75 [2014-06-25; online 2014-06-25]

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Exome sequencing circumvents missing clinical data and identifies a BSCL2 mutation in congenital lipodystrophy.

Schuster J, Khan TN, Tariq M, ..., Baig SM, Klar J

BMC Med. Genet. 15 (-) 71 [2014-06-24; online 2014-06-24]

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Fabrication and functionalization of PCB gold electrodes suitable for DNA-based electrochemical sensing.

Salvo P, Henry OY, Dhaenens K, ..., O'Sullivan CK, Vanfleteren J

Biomed Mater Eng 24 (4) 1705-1714 [2014-06-21; online 2014-06-21]

Affiliated researcher

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The genomic landscape underlying phenotypic integrity in the face of gene flow in crows.

Poelstra JW, Vijay N, Bossu CM, ..., Grabherr MG, Wolf JB

Science 344 (6190) 1410-1414 [2014-06-20; online 2014-06-21]

Affiliated researcher

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Rational design and validation of a Tip60 histone acetyltransferase inhibitor.

Gao C, Bourke E, Scobie M, ..., Lowndes NF, Brown JA

Sci Rep 4 (-) 5372 [2014-06-20; online 2014-06-20]

Affiliated researcher

PubMed DOI Crossref

Identification of human cerebrospinal fluid proteins and their distribution in an in vitro microdialysis sampling system.

Wetterhall M, Bergquist J, Hillered L, Hjort K, Dahlin AP

Eur J Pharm Sci 57 (-) 34-40 [2014-06-16; online 2013-12-20]

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Functional association networks as priors for gene regulatory network inference.

Studham ME, Tjärnberg A, Nordling TE, Nelander S, Sonnhammer EL

Bioinformatics 30 (12) i130-i138 [2014-06-15; online 2014-06-17]

Affiliated researcher

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Boosting of HIV-1 neutralizing antibody responses by a distally related retroviral envelope protein.

Uchtenhagen H, Schiffner T, Bowles E, ..., Stewart-Jones G, Spetz AL

J. Immunol. 192 (12) 5802-5812 [2014-06-15; online 2014-05-14]

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Tyrosine phosphorylation profiling via in situ proximity ligation assay.

Elfineh L, Classon C, Asplund A, ..., Kamali-Moghaddam M, Lind SB

BMC Cancer 14 (-) 435 [2014-06-13; online 2014-06-13]

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Analysis of structural diversity in wolf-like canids reveals post-domestication variants.

Ramirez O, Olalde I, Berglund J, ..., Vilà C, Marques-Bonet T

BMC Genomics 15 (-) 465 [2014-06-12; online 2014-06-12]

Affiliated researcher

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Stereoselective synthesis of carbocyclic analogues of the nucleoside Q precursor (PreQ0).

Llona-Minguez S, Mackay SP

Beilstein J Org Chem 10 (-) 1333-1338 [2014-06-11; online 2014-06-11]

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QUANTIFICATION OF THE 3D MORPHOLOGY OF THE BONE CELL NETWORK FROM SYNCHROTRON MICRO-CT IMAGES

Dong P, Pacureanu A, Zuluaga MA, ..., Grimal Q, Peyrin F

Image Anal Stereol 33 (2) 157 [2014-06-07; online 2014-06-07]

Affiliated researcher

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Efficient de novo assembly of large and complex genomes by massively parallel sequencing of Fosmid pools.

Alexeyenko A, Nystedt B, Vezzi F, ..., Wu CC, Lundeberg J

BMC Genomics 15 (-) 439 [2014-06-06; online 2014-06-06]

Affiliated researcher

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Role of Na,K-ATPase α1 and α2 isoforms in the support of astrocyte glutamate uptake.

Illarionova NB, Illarionava NB, Brismar H, Aperia A, Gunnarson E

PLoS ONE 9 (6) e98469 [2014-06-05; online 2014-06-05]

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Identification of genes involved in the biology of atypical teratoid/rhabdoid tumours using Drosophila melanogaster.

Jeibmann A, Eikmeier K, Linge A, ..., Paulus W, Hasselblatt M

Nat Commun 5 (-) 4005 [2014-06-03; online 2014-06-03]

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Early B cell factor 1 regulates adipocyte morphology and lipolysis in white adipose tissue.

Gao H, Mejhert N, Fretz JA, ..., Horowitz MC, Arner P

Cell Metab. 19 (6) 981-992 [2014-06-03; online 2014-05-22]

Affiliated researcher

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Scanning inverse fluorescence correlation spectroscopy.

Bergstrand J, Rönnlund D, Widengren J, Wennmalm S

Opt Express 22 (11) 13073-13090 [2014-06-02; online 2014-06-13]

Affiliated researcher

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Genetic determinants of heel bone properties: genome-wide association meta-analysis and replication in the GEFOS/GENOMOS consortium.

Moayyeri A, Hsu YH, Karasik D, ..., Reeve J, Kaptoge SK

Hum. Mol. Genet. 23 (11) 3054-3068 [2014-06-01; online 2014-01-14]

Affiliated researcher

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Variations on a theme: Polycomb group proteins in plants.

Derkacheva M, Hennig L

J. Exp. Bot. 65 (10) 2769-2784 [2014-06-00; online 2013-12-13]

Affiliated researcher

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The human testis-specific proteome defined by transcriptomics and antibody-based profiling.

Djureinovic D, Fagerberg L, Hallström B, ..., Uhlén M, Pontén F

Mol. Hum. Reprod. 20 (6) 476-488 [2014-06-00; online 2014-03-05]

Affiliated researcher

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The age and genomic integrity of neurons after cortical stroke in humans.

Huttner HB, Bergmann O, Salehpour M, ..., Lundeberg J, Frisén J

Nat. Neurosci. 17 (6) 801-803 [2014-06-00; online 2014-04-20]

Affiliated researcher

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The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): illuminating the functional diversity of eukaryotic life in the oceans through transcriptome sequencing.

Keeling PJ, Burki F, Wilcox HM, ..., Zingone A, Worden AZ

PLoS Biol. 12 (6) e1001889 [2014-06-00; online 2014-06-24]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

SpliceVista, a tool for splice variant identification and visualization in shotgun proteomics data.

Zhu Y, Hultin-Rosenberg L, Forshed J, ..., Orre LM, Lehtiö J

Mol. Cell Proteomics 13 (6) 1552-1562 [2014-06-00; online 2014-04-01]

Affiliated researcher

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Soluble TNF receptors and kidney dysfunction in the elderly.

Carlsson AC, Larsson TE, Helmersson-Karlqvist J, ..., Lind L, Ärnlöv J

J. Am. Soc. Nephrol. 25 (6) 1313-1320 [2014-06-00; online 2014-02-07]

Affiliated researcher

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Simultaneous uptake of lignocellulose-based monosaccharides by Escherichia coli.

Jarmander J, Hallström BM, Larsson G

Biotechnol. Bioeng. 111 (6) 1108-1115 [2014-06-00; online 2014-01-23]

Affiliated researcher

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STED microscopy - towards broadened use and scope of applications.

Blom H, Widengren J

Curr Opin Chem Biol 20 (-) 127-133 [2014-06-00; online 2014-06-28]

Affiliated researcher

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Proteome-wide epitope mapping of antibodies using ultra-dense peptide arrays.

Forsström B, Axnäs BB, Stengele KP, ..., Rockberg J, Uhlen M

Mol. Cell Proteomics 13 (6) 1585-1597 [2014-06-00; online 2014-04-04]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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Orphans and new gene origination, a structural and evolutionary perspective.

Light S, Basile W, Elofsson A

Curr. Opin. Struct. Biol. 26 (-) 73-83 [2014-06-00; online 2014-06-13]

Affiliated researcher

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Nucleosome regulatory dynamics in response to TGFβ.

Enroth S, Andersson R, Bysani M, ..., Komorowski J, Wadelius C

Nucleic Acids Res. 42 (11) 6921-6934 [2014-06-00; online 2014-04-25]

Affiliated researcher

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Mosaic loss of chromosome Y in peripheral blood is associated with shorter survival and higher risk of cancer.

Forsberg LA, Rasi C, Malmqvist N, ..., Lind L, Dumanski JP

Nat. Genet. 46 (6) 624-628 [2014-06-00; online 2014-04-28]

Affiliated researcher

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Molecular evolution of GPCRs: Somatostatin/urotensin II receptors.

Tostivint H, Ocampo Daza D, Bergqvist CA, ..., Lihrmann I, Larhammar D

J. Mol. Endocrinol. 52 (3) T61-T86 [2014-06-00; online 2014-04-16]

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Low gut microbiota diversity in early infancy precedes asthma at school age.

Abrahamsson TR, Jakobsson HE, Andersson AF, ..., Engstrand L, Jenmalm MC

Clin. Exp. Allergy 44 (6) 842-850 [2014-06-00; online 2013-12-18]

Affiliated researcher

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Impact of type 2 diabetes susceptibility variants on quantitative glycemic traits reveals mechanistic heterogeneity.

Dimas AS, Lagou V, Barker A, ..., Prokopenko I, MAGIC Investigators

Diabetes 63 (6) 2158-2171 [2014-06-00; online 2013-12-02]

Affiliated researcher

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Immunoproteomics using polyclonal antibodies and stable isotope-labeled affinity-purified recombinant proteins.

Edfors F, Boström T, Forsström B, ..., Mann M, Uhlen M

Mol. Cell Proteomics 13 (6) 1611-1624 [2014-06-00; online 2014-04-10]

Affiliated researcher

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Immunomodulatory activity of commonly used drugs on Fc-receptor-mediated human natural killer cell activation.

Theorell J, Gustavsson AL, Tesi B, ..., Lundbäck T, Bryceson YT

Cancer Immunol. Immunother. 63 (6) 627-641 [2014-06-00; online 2014-03-30]

Affiliated researcher

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Identification of B-cell lymphoma subsets by plasma protein profiling using recombinant antibody microarrays.

Pauly F, Smedby KE, Jerkeman M, ..., Borrebaeck CA, Wingren C

Leuk. Res. 38 (6) 682-690 [2014-06-00; online 2014-03-22]

Affiliated researcher

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Human single-stranded DNA binding protein 1 (hSSB1/NABP2) is required for the stability and repair of stalled replication forks.

Bolderson E, Petermann E, Croft L, ..., Khanna KK, Richard DJ

Nucleic Acids Res. 42 (10) 6326-6336 [2014-06-00; online 2014-04-20]

Affiliated researcher

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GradientOptimizer: an open-source graphical environment for calculating optimized gradients in reversed-phase liquid chromatography.

Moruz L, Käll L

Proteomics 14 (12) 1464-1466 [2014-06-00; online 2014-05-15]

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Genetic factors may play a prominent role in the development of coronary heart disease dependent on important environmental factors.

Song C, Chang Z, Magnusson PK, Ingelsson E, Pedersen NL

J. Intern. Med. 275 (6) 631-639 [2014-06-00; online 2014-01-03]

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Garbage in, garbage out: a critical evaluation of strategies used for validation of immunohistochemical biomarkers.

O'Hurley G, Sjöstedt E, Rahman A, ..., Gallagher WM, Lindskog C

Mol Oncol 8 (4) 783-798 [2014-06-00; online 2014-03-21]

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Effects of prescribed antihypertensives and other cardiovascular drugs on mortality in patients with atrial fibrillation and hypertension: a cohort study from Sweden.

Carlsson AC, Wändell P, Sundquist K, Johansson SE, Sundquist J

Hypertens. Res. 37 (6) 553-559 [2014-06-00; online 2014-03-06]

Affiliated researcher

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Diversity and abundance of aromatic catabolic genes in lake sediments in response to temperature change.

Osman OA, Gudasz C, Bertilsson S

FEMS Microbiol. Ecol. 88 (3) 468-481 [2014-06-00; online 2014-03-25]

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Development of a 124I-labeled version of the anti-PSMA monoclonal antibody capromab for immunoPET staging of prostate cancer: Aspects of labeling chemistry and biodistribution.

Tolmachev V, Malmberg J, Estrada S, Eriksson O, Orlova A

Int. J. Oncol. 44 (6) 1998-2008 [2014-06-00; online 2014-04-10]

Olof Eriksson SciLifeLab Fellow

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DNA methylation and body-mass index: a genome-wide analysis

Dick KJ, Nelson CP, Tsaprouni L, ..., Deloukas P, Samani NJ

The Lancet 383 (9933) 1990-1998 [2014-06-00; online 2014-06-00]

Affiliated researcher

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Characterization of Leukocyte Formin FMNL1 Expression in Human Tissues.

Gardberg M, Heuser VD, Iljin K, ..., Uhlen M, Carpén O

J. Histochem. Cytochem. 62 (6) 460-470 [2014-06-00; online 2014-04-03]

Affiliated researcher

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Brown and polar bear Y chromosomes reveal extensive male-biased gene flow within brother lineages.

Bidon T, Janke A, Fain SR, ..., Lecomte N, Hailer F

Mol. Biol. Evol. 31 (6) 1353-1363 [2014-06-00; online 2014-03-25]

Affiliated researcher

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Association of condensin with chromosomes depends on DNA binding by its HEAT-repeat subunits

Piazza I, Rutkowska A, Ori A, ..., Beck M, Haering CH

Nat Struct Mol Biol 21 (6) 560-568 [2014-06-00; online 2014-05-18]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Why have small multidrug resistance proteins not evolved into fused, internally duplicated structures?

Lloris-Garcerá P, Seppälä S, Slusky JS, Rapp M, von Heijne G

J. Mol. Biol. 426 (11) 2246-2254 [2014-05-29; online 2014-03-30]

Affiliated researcher

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Trait-based approaches for understanding microbial biodiversity and ecosystem functioning.

Krause S, Le Roux X, Niklaus PA, ..., Philippot L, Bodelier PL

Front Microbiol 5 (-) 251 [2014-05-27; online 2014-05-27]

Affiliated researcher

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Private haplotypes can reveal local adaptation.

Sjöstrand AE, Sjödin P, Jakobsson M

BMC Genet. 15 (-) 61 [2014-05-22; online 2014-05-22]

Affiliated researcher

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Weak pulling forces exerted on Nin-orientated transmembrane segments during co-translational insertion into the inner membrane of Escherichia coli.

Cymer F, Ismail N, von Heijne G

FEBS Lett. 588 (10) 1930-1934 [2014-05-21; online 2014-04-12]

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A lateral flow paper microarray for rapid allergy point of care diagnostics.

Chinnasamy T, Segerink LI, Nystrand M, Gantelius J, Svahn HA

Analyst 139 (10) 2348-2354 [2014-05-21; online 2014-04-03]

Affiliated researcher

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Chemical properties, environmental fate, and degradation of seven classes of pollutants.

Manzetti S, van der Spoel ER, van der Spoel D

Chem. Res. Toxicol. 27 (5) 713-737 [2014-05-19; online 2014-03-28]

Affiliated researcher

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Genomic diversity and admixture differs for Stone-Age Scandinavian foragers and farmers.

Skoglund P, Malmström H, Omrak A, ..., Götherström A, Jakobsson M

Science 344 (6185) 747-750 [2014-05-16; online 2014-04-24]

Affiliated researcher

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Reversible Modification of CdSe–CdS/ZnS Quantum Dot Fluorescence by Surrounding Ca2+ Ions

Li L, Chen Y, Tian G, ..., Brismar H, Fu Y

J. Phys. Chem. C 118 (19) 10424-10433 [2014-05-15; online 2014-05-02]

Affiliated researcher

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Cell type–specific expression of SEPT3-homology subgroup members controls the subunit number of heteromeric septin complexes

Sellin ME, Stenmark S, Gullberg M

MBoC 25 (10) 1594-1607 [2014-05-15; online 2014-05-15]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Proteomics analysis of melanoma metastases: association between S100A13 expression and chemotherapy resistance.

Azimi A, Pernemalm M, Frostvik Stolt M, ..., Egyházi Brage S, Hertzman Johansson C

Br. J. Cancer 110 (10) 2489-2495 [2014-05-13; online 2014-04-10]

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Reduced expression of ezrin in urothelial bladder cancer signifies more advanced tumours and an impaired survival: validatory study of two independent patient cohorts.

Andersson G, Wennersten C, Gaber A, ..., Malmström PU, Jirström K

BMC Urol 14 (-) 36 [2014-05-12; online 2014-05-12]

Affiliated researcher

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More than fishing in the dark: PCR of a dispersed sequence produces simple but ultrasensitive Wolbachia detection.

Schneider DI, Klasson L, Lind AE, Miller WJ

BMC Microbiol. 14 (-) 121 [2014-05-12; online 2014-05-12]

Affiliated researcher

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Ciruvis: a web-based tool for rule networks and interaction detection using rule-based classifiers.

Bornelöv S, Marillet S, Komorowski J

BMC Bioinformatics 15 (-) 139 [2014-05-12; online 2014-05-12]

Affiliated researcher

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Chemical strategies for development of ATR inhibitors.

Llona-Minguez S, Höglund A, Jacques SA, Koolmeister T, Helleday T

Expert Rev Mol Med 16 (-) e10 [2014-05-09; online 2014-05-09]

Affiliated researcher

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Uterine leiomyoma-linked MED12 mutations disrupt mediator-associated CDK activity.

Turunen M, Spaeth JM, Keskitalo S, ..., Taipale J, Boyer TG

Cell Reports 7 (3) 654-660 [2014-05-08; online 2014-04-18]

Affiliated researcher

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Genetic variation in the CYP2B6 gene is related to circulating 2,2',4,4'-tetrabromodiphenyl ether (BDE-47) concentrations: an observational population-based study.

Penell J, Lind L, Fall T, ..., Ingelsson E, Lind PM

Environ Health 13 (1) 34 [2014-05-08; online 2014-05-08]

Affiliated researcher

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Bone canalicular network segmentation in 3D nano-CT images through geodesic voting and image tessellation.

Zuluaga MA, Orkisz M, Dong P, ..., Gouttenoire PJ, Peyrin F

Phys Med Biol 59 (9) 2155-2171 [2014-05-07; online 2014-04-08]

Affiliated researcher

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Bead arrays for antibody and complement profiling reveal joint contribution of antibody isotypes to C3 deposition.

Ayoglu B, Szarka E, Huber K, ..., Nilsson P, Papp K

PLoS ONE 9 (5) e96403 [2014-05-05; online 2014-05-05]

Affiliated researcher

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Zebrafish heart development is regulated via glutaredoxin 2 dependent migration and survival of neural crest cells.

Berndt C, Poschmann G, Stühler K, Holmgren A, Bräutigam L

Redox Biol 2 (-) 673-678 [2014-05-02; online 2014-05-02]

Affiliated researcher

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The Eukaryotic Tree of Life from a Global Phylogenomic Perspective

Burki F

Cold Spring Harbor Perspectives in Biology 6 (5) a016147-a016147 [2014-05-01; online 2014-05-01]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Besingi W, Johansson A

Hum. Mol. Genet. 23 (9) 2290-2297 [2014-05-01; online 2013-12-11]

Affiliated researcher

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DNA mismatch repair gene MSH6 implicated in determining age at natural menopause.

Perry JR, Hsu YH, Chasman DI, ..., Karasik D, Murray A

Hum. Mol. Genet. 23 (9) 2490-2497 [2014-05-01; online 2013-12-19]

Affiliated researcher

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Voltage-gated ion channel modulation by lipids: Insights from molecular dynamics simulations

Kasimova MA, Tarek M, Shaytan AK, Shaitan KV, Delemotte L

Biochimica et Biophysica Acta (BBA) - Biomembranes 1838 (5) 1322-1331 [2014-05-00; online 2014-05-00]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

The role of the tumor-microenvironment in lung cancer-metastasis and its relationship to potential therapeutic targets.

Wood SL, Pernemalm M, Crosbie PA, Whetton AD

Cancer Treat. Rev. 40 (4) 558-566 [2014-05-00; online 2013-10-15]

Affiliated researcher

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The role of SATB2 as a diagnostic marker for tumors of colorectal origin: Results of a pathology-based clinical prospective study.

Dragomir A, de Wit M, Johansson C, Uhlen M, Pontén F

Am. J. Clin. Pathol. 141 (5) 630-638 [2014-05-00; online 2014-04-10]

Affiliated researcher

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The RING-Finger E3 Ubiquitin Ligase COP1 SUPPRESSOR1 Negatively Regulates COP1 Abundance in Maintaining COP1 Homeostasis in Dark-Grown Arabidopsis Seedlings.

Xu D, Lin F, Jiang Y, ..., Holm M, Deng XW

Plant Cell 26 (5) 1981-1991 [2014-05-00; online 2014-05-16]

Affiliated researcher

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Somatic cells with a heavy mitochondrial DNA mutational load render induced pluripotent stem cells with distinct differentiation defects.

Wahlestedt M, Ameur A, Moraghebi R, ..., Woods NB, Bryder D

Stem Cells 32 (5) 1173-1182 [2014-05-00; online 2014-01-22]

Affiliated researcher

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Rapid TaqMan-based quantification of chlorophyll d-containing cyanobacteria in the genus Acaryochloris.

Behrendt L, Nielsen JL, Sørensen SJ, ..., Winther JR, Kühl M

Applied and environmental microbiology 80 (10) 3244-3249 [2014-05-00; online 2014-03-14]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Quality control and conduct of genome-wide association meta-analyses.

Winkler TW, Day FR, Croteau-Chonka DC, ..., Loos RJ, Genetic Investigation of Anthropometric Traits (GIANT) Consortium

Nat Protoc 9 (5) 1192-1212 [2014-05-00; online 2014-04-24]

Affiliated researcher

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Proteome labeling and protein identification in specific tissues and at specific developmental stages in an animal

Elliott TS, Townsley FM, Bianco A, ..., Lilley KS, Chin JW

Nat Biotechnol 32 (5) 465-472 [2014-05-00; online 2014-04-13]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Protein biomarker validation via proximity ligation assays.

Blokzijl A, Nong R, Darmanis S, ..., Landegren U, Kamali-Moghaddam M

Biochim. Biophys. Acta 1844 (5) 933-939 [2014-05-00; online 2013-08-07]

Affiliated researcher

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Pharmacokinetics for topically applied caffeine in the rat.

Kronschläger M, Forsman E, Yu Z, ..., Bergquist J, Söderberg P

Exp. Eye Res. 122 (-) 94-101 [2014-05-00; online 2014-04-01]

Affiliated researcher

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PTPN6 expression is epigenetically regulated and influences survival and response to chemotherapy in high-grade gliomas.

Sooman L, Ekman S, Tsakonas G, ..., Gullbo J, Lennartsson J

Tumour Biol. 35 (5) 4479-4488 [2014-05-00; online 2014-02-09]

Affiliated researcher

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Inflammatory biomarker pentraxin 3 (PTX3) in relation to obesity, body fat depots and weight loss.

Witasp A, Carrero JJ, Michaëlsson K, ..., Stenvinkel P, Arnlöv J

Obesity (Silver Spring) 22 (5) 1373-1379 [2014-05-00; online 2014-01-25]

Affiliated researcher

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Increased urinary cystatin C indicated higher risk of cardiovascular death in a community cohort.

Helmersson-Karlqvist J, Ärnlöv J, Carlsson AC, Härmä J, Larsson A

Atherosclerosis 234 (1) 108-113 [2014-05-00; online 2014-02-28]

Affiliated researcher

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GRM1 is upregulated through gene fusion and promoter swapping in chondromyxoid fibroma.

Nord KH, Lilljebjörn H, Vezzi F, ..., Hogendoorn PC, Szuhai K

Nat. Genet. 46 (5) 474-477 [2014-05-00; online 2014-03-23]

Affiliated researcher

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Engineering synergy in biotechnology.

Nielsen J, Fussenegger M, Keasling J, ..., Prather K, Palsson B

Nat. Chem. Biol. 10 (5) 319-322 [2014-05-00; online 2014-04-20]

Affiliated researcher

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Discrimination of conventional and organic white cabbage from a long-term field trial study using untargeted LC-MS-based metabolomics.

Mie A, Laursen KH, Åberg KM, ..., Larsen EH, Husted S

Anal Bioanal Chem 406 (12) 2885-2897 [2014-05-00; online 2014-03-12]

Affiliated researcher

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Detection of metastatic insulinoma by positron emission tomography with [(68)ga]exendin-4-a case report.

Eriksson O, Velikyan I, Selvaraju RK, ..., Sörensen J, Korsgren O

J. Clin. Endocrinol. Metab. 99 (5) 1519-1524 [2014-05-00; online 2014-02-10]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Dean flow-coupled inertial focusing in curved channels.

Ramachandraiah H, Ardabili S, Faridi AM, ..., Mårtensson G, Russom A

Biomicrofluidics 8 (3) 034117 [2014-05-00; online 2014-06-24]

Affiliated researcher

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CCL2 mediates anti-fibrotic effects in human fibroblasts independently of CCR2.

Kalderén C, Stadler C, Forsgren M, ..., Sydow-Bäckman M, Svensson Gelius S

Int. Immunopharmacol. 20 (1) 66-73 [2014-05-00; online 2014-02-26]

Affiliated researcher

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Assessing the maximum contribution from ancient populations.

Sjödin P, Skoglund P, Jakobsson M

Mol. Biol. Evol. 31 (5) 1248-1260 [2014-05-00; online 2014-02-03]

Affiliated researcher

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A Bayesian method for analyzing lateral gene transfer.

Sjöstrand J, Tofigh A, Daubin V, ..., Sennblad B, Lagergren J

Syst. Biol. 63 (3) 409-420 [2014-05-00; online 2014-02-20]

Affiliated researcher

PubMed DOI Crossref

Mutation analysis of components of the Mediator kinase module in MED12 mutation-negative uterine leiomyomas.

Mäkinen N, Heinonen HR, Sjöberg J, ..., Vahteristo P, Aaltonen LA

Br. J. Cancer 110 (9) 2246-2249 [2014-04-29; online 2014-03-18]

Affiliated researcher

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Integration of clinical data with a genome-scale metabolic model of the human adipocyte

Mardinoglu A, Agren R, Kampf C, ..., Uhlen M, Nielsen J

Mol Syst Biol 9 (1) 649-649 [2014-04-28; online 2014-04-28]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

PubMed DOI Crossref

Revival of calcium-binding proteins for neuromorphology: secretagogin typifies distinct cell populations in the avian brain.

Gáti G, Lendvai D, Hökfelt T, Harkany T, Alpár A

Brain Behav. Evol. 83 (2) 82-92 [2014-04-24; online 2014-04-24]

Affiliated researcher

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Contribution of Network Connectivity in Determining the Relationship between Gene Expression and Metabolite Concentration Changes

Zelezniak A, Sheridan S, Patil KR

PLoS Comput Biol 10 (4) e1003572 [2014-04-24; online 2014-04-24]

Aleksej Zelezniak SciLifeLab Fellow

PubMed DOI Crossref

Evaluation of cancer stem cell markers CD133, CD44, CD24: association with AKT isoforms and radiation resistance in colon cancer cells.

Sahlberg SH, Spiegelberg D, Glimelius B, Stenerlöw B, Nestor M

PLoS ONE 9 (4) e94621 [2014-04-23; online 2014-04-23]

Affiliated researcher

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Systematic design of 18S rRNA gene primers for determining eukaryotic diversity in microbial consortia.

Hugerth LW, Muller EE, Hu YO, ..., Wilmes P, Andersson AF

PLoS ONE 9 (4) e95567 [2014-04-22; online 2014-04-22]

Affiliated researcher DDLS Fellow Luisa Hugerth

PubMed DOI Crossref

Lactase persistence alleles reveal partial East African ancestry of southern African Khoe pastoralists.

Breton G, Schlebusch CM, Lombard M, ..., Soodyall H, Jakobsson M

Curr. Biol. 24 (8) 852-858 [2014-04-14; online 2014-04-03]

Affiliated researcher

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Stereospecific targeting of MTH1 by (S)-crizotinib as an anticancer strategy.

Huber KV, Salah E, Radic B, ..., Knapp S, Superti-Furga G

Nature 508 (7495) 222-227 [2014-04-10; online 2014-04-02]

Affiliated researcher

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MTH1 inhibition eradicates cancer by preventing sanitation of the dNTP pool.

Gad H, Koolmeister T, Jemth AS, ..., Berglund UW, Helleday T

Nature 508 (7495) 215-221 [2014-04-10; online 2014-04-02]

Affiliated researcher

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A high-throughput cell-based method to predict the unbound drug fraction in the brain.

Mateus A, Matsson P, Artursson P

J. Med. Chem. 57 (7) 3005-3010 [2014-04-10; online 2014-03-20]

Affiliated researcher

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EphA4-mediated ipsilateral corticospinal tract misprojections are necessary for bilateral voluntary movements but not bilateral stereotypic locomotion.

Serradj N, Paixão S, Sobocki T, ..., Kullander K, Martin JH

J. Neurosci. 34 (15) 5211-5221 [2014-04-09; online 2014-04-11]

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ZBED6 modulates the transcription of myogenic genes in mouse myoblast cells.

Jiang L, Wallerman O, Younis S, ..., Andersson G, Andersson L

PLoS ONE 9 (4) e94187 [2014-04-08; online 2014-04-08]

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Pilot M, Dąbrowski MJ, Hayrapetyan V, ..., Kamiński S, Bogdanowicz W

PLoS ONE 9 (4) e93828 [2014-04-08; online 2014-04-08]

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Raykova D, Klar J, Azhar A, ..., Baig SM, Dahl N

PLoS ONE 9 (4) e93607 [2014-04-08; online 2014-04-08]

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HMG-CoA reductase expression in primary colorectal cancer correlates with favourable clinicopathological characteristics and an improved clinical outcome.

Bengtsson E, Nerjovaj P, Wangefjord S, ..., Borgquist S, Jirström K

Diagn Pathol 9 (-) 78 [2014-04-07; online 2014-04-07]

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Expression of the pupal determinant broad during metamorphic and neotenic development of the strepsipteran Xenos vesparum Rossi.

Erezyilmaz DF, Hayward A, Huang Y, ..., Collantes F, Kathirithamby J

PLoS ONE 9 (4) e93614 [2014-04-07; online 2014-04-07]

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Evidence for the biogenesis of more than 1,000 novel human microRNAs.

Friedländer MR, Lizano E, Houben AJ, ..., Martí E, Estivill X

Genome Biol. 15 (4) R57 [2014-04-07; online 2014-04-07]

Marc Friedländer SciLifeLab Fellow

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RNA- and antibody-based profiling of the human proteome with focus on chromosome 19.

Stadler C, Fagerberg L, Sivertsson Å, ..., Lundberg E, Uhlén M

J. Proteome Res. 13 (4) 2019-2027 [2014-04-04; online 2014-03-12]

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Evidence of Conducting Hydrophobic Nanopores Across Membranes in Response to an Electric Field

Dehez F, Delemotte L, Kramar P, Miklavčič D, Tarek M

J. Phys. Chem. C 118 (13) 6752-6757 [2014-04-03; online 2014-03-19]

Lucie Delemotte SciLifeLab Fellow

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Cooperative Binding of Cyclodextrin Dimers to Isoflavone Analogues Elucidated by Free Energy Calculations.

Zhang H, Tan T, Hetényi C, Lv Y, van der Spoel D

J. Phys. Chem. C 118 (13) 7163-7173 [2014-04-03; online 2014-03-14]

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Expression and prognostic significance of the polymeric immunoglobulin receptor in esophageal and gastric adenocarcinoma.

Fristedt R, Gaber A, Hedner C, ..., Eberhard J, Jirström K

J Transl Med 12 (-) 83 [2014-04-02; online 2014-04-02]

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Tissue factor/factor VIIa induces cell survival and gene transcription by transactivation of the insulin-like growth factor 1 receptor.

Åberg M, Eriksson O, Mokhtari D, Siegbahn A

Thromb. Haemost. 111 (4) 748-760 [2014-04-01; online 2013-12-12]

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WNT5A-mediated β-catenin-independent signalling is a novel regulator of cancer cell metabolism.

Sherwood V, Chaurasiya SK, Ekström EJ, ..., James P, Andersson T

Carcinogenesis 35 (4) 784-794 [2014-04-00; online 2013-11-30]

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Transcription Factor Activating Protein-2β (TFAP-2β) genotype and symptoms of attention deficit hyperactivity disorder in relation to symptoms of depression in two independent samples.

Nilsson KW, Sonnby K, Nordquist N, ..., Oreland L, Sjöberg RL

Eur Child Adolesc Psychiatry 23 (4) 207-217 [2014-04-00; online 2013-07-04]

Erika Comasco SciLifeLab Fellow

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To divide or not to divide: control of the bacterial cell cycle by environmental cues

Jonas K

Current Opinion in Microbiology 18 (-) 54-60 [2014-04-00; online 2014-04-00]

Kristina Jonas SciLifeLab Fellow

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Telomere length in circulating leukocytes is associated with lung function and disease.

Albrecht E, Sillanpää E, Karrasch S, ..., Jarvelin MR, Schulz H

Eur. Respir. J. 43 (4) 983-992 [2014-04-00; online 2013-12-05]

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Stochastic reaction-diffusion processes with embedded lower-dimensional structures.

Wang S, Elf J, Hellander S, Lötstedt P

Bull. Math. Biol. 76 (4) 819-853 [2014-04-00; online 2013-10-26]

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Organocatalytic Mannich Reactions on a Carbapenem Core - Synthesis of Mannich Bases and Bicyclic Diazanonanes

Cele ZED, Pawar SA, Naicker T, ..., Kruger HG, Govender T

Eur. J. Org. Chem. 2014 (11) 2253-2260 [2014-04-00; online 2014-02-06]

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Loss-of-function mutations in SLC30A8 protect against type 2 diabetes.

Flannick J, Thorleifsson G, Beer NL, ..., Stefansson K, Altshuler D

Nat. Genet. 46 (4) 357-363 [2014-04-00; online 2014-03-02]

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Intracellular concentration of the tyrosine kinase inhibitor imatinib in gastrointestinal stromal tumor cells.

Berglund E, Ubhayasekera SJ, Karlsson F, ..., Bergquist J, Bränström R

Anticancer Drugs 25 (4) 415-422 [2014-04-00; online 2013-12-24]

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Interplay of overweight and insulin resistance on hypertension development.

Lytsy P, Ingelsson E, Lind L, Arnlöv J, Sundström J

J. Hypertens. 32 (4) 834-839 [2014-04-00; online 2013-12-29]

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Interfacing picoliter droplet microfluidics with addressable microliter compartments using fluorescence activated cell sorting

Bai Y, Weibull E, Joensson HN, Andersson-Svahn H

Sensors and Actuators B: Chemical 194 (-) 249-254 [2014-04-00; online 2014-04-00]

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Identification of three molecular and functional subtypes in canine hemangiosarcoma through gene expression profiling and progenitor cell characterization.

Gorden BH, Kim JH, Sarver AL, ..., Modiano JF, Dickerson EB

Am. J. Pathol. 184 (4) 985-995 [2014-04-00; online 2014-02-11]

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Enhanced greenhouse gas emissions and changes in plankton communities following an experimental increase in organic carbon loading to a humic lake

Peura S, Nykänen H, Kankaala P, ..., Tiirola M, Jones RI

Biogeochemistry 118 (1-3) 177-194 [2014-04-00; online 2013-10-16]

Sari Peura SciLifeLab Fellow

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Disassembly of the divisome in Escherichia coli: evidence that FtsZ dissociates before compartmentalization.

Söderström B, Skoog K, Blom H, ..., von Heijne G, Daley DO

Mol. Microbiol. 92 (1) 1-9 [2014-04-00; online 2014-02-20]

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Direct measurement of transcription factor dissociation excludes a simple operator occupancy model for gene regulation.

Hammar P, Walldén M, Fange D, ..., Leroy P, Elf J

Nat. Genet. 46 (4) 405-408 [2014-04-00; online 2014-02-23]

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Decreased gut microbiota diversity, delayed Bacteroidetes colonisation and reduced Th1 responses in infants delivered by caesarean section.

Jakobsson HE, Abrahamsson TR, Jenmalm MC, ..., Engstrand L, Andersson AF

Gut 63 (4) 559-566 [2014-04-00; online 2013-08-07]

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DAXX co-folds with H3.3/H4 using high local stability conferred by the H3.3 variant recognition residues

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Nucleic Acids Res. 42 (7) 4318-4331 [2014-04-00; online 2014-01-31]

SciLifeLab Fellow Simon Elsässer

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Cerebrovascular and ischemic heart disease in young adults born preterm: a population-based Swedish cohort study.

Ueda P, Cnattingius S, Stephansson O, ..., Ludvigsson JF, Bonamy AK

Eur. J. Epidemiol. 29 (4) 253-260 [2014-04-00; online 2014-04-01]

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Cell line profiling to improve monoclonal antibody production.

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Biotechnol. Bioeng. 111 (4) 748-760 [2014-04-00; online 2013-11-19]

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Caspase-1-like regulation of the proPO-system and role of ppA and caspase-1-like cleaved peptides from proPO in innate immunity.

Jearaphunt M, Noonin C, Jiravanichpaisal P, ..., Söderhäll I, Söderhäll K

PLoS Pathog 10 (4) e1004059 [2014-04-00; online 2014-04-10]

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Affinity proteomics reveals elevated muscle proteins in plasma of children with cerebral malaria.

Bachmann J, Burté F, Pramana S, ..., Fernandez-Reyes D, Nilsson P

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A novel stop mutation in the EDNRB gene in a family with Hirschsprung's disease associated with multiple sclerosis.

Granström AL, Markljung E, Fink K, ..., Wester T, Nordenskjöld A

J. Pediatr. Surg. 49 (4) 622-625 [2014-04-00; online 2013-11-14]

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A cis-eQTL of HLA-DRB1 and a frameshift mutation of MICA contribute to the pattern of association of HLA alleles with cervical cancer.

Chen D, Gyllensten U

Cancer Med 3 (2) 445-452 [2014-04-00; online 2014-02-12]

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A central role for GRB10 in regulation of islet function in man.

Prokopenko I, Poon W, Mägi R, ..., Groop L, Lyssenko V

PLoS Genet 10 (4) e1004235 [2014-04-00; online 2014-04-03]

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NRP1 presented in trans to the endothelium arrests VEGFR2 endocytosis, preventing angiogenic signaling and tumor initiation.

Koch S, van Meeteren LA, Morin E, ..., Berger P, Claesson-Welsh L

Dev. Cell 28 (6) 633-646 [2014-03-31; online 2014-03-20]

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Structure of the Yeast Mitochondrial Large Ribosomal Subunit

Amunts A, Brown A, Bai Xc, ..., Scheres SHW, Ramakrishnan V

Science 343 (6178) 1485-1489 [2014-03-28; online 2014-03-27]

Alexey Amunts SciLifeLab Fellow

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Identification of anticancer drugs for hepatocellular carcinoma through personalized genome-scale metabolic modeling

Agren R, Mardinoglu A, Asplund A, ..., Uhlen M, Nielsen J

Mol Syst Biol 10 (3) 721-721 [2014-03-28; online 2014-03-19]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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Impact of stereospecific intramolecular hydrogen bonding on cell permeability and physicochemical properties.

Over B, McCarren P, Artursson P, ..., Duvall JR, Kihlberg J

J. Med. Chem. 57 (6) 2746-2754 [2014-03-27; online 2014-02-26]

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A promoter-level mammalian expression atlas.

FANTOM Consortium and the RIKEN PMI and CLST (DGT) , Forrest AR, Kawaji H, ..., Carninci P, Hayashizaki Y

Nature 507 (7493) 462-470 [2014-03-27; online 2014-03-29]

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Visualization of angiogenesis during cancer development in the polyoma middle T breast cancer model: molecular imaging with (R)-[11C]PAQ.

Samén E, Lu L, Mulder J, ..., Rundqvist H, Stone-Elander S

EJNMMI Res 4 (1) 17 [2014-03-26; online 2014-03-26]

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Nanoscopic spine localization of Norbin, an mGluR5 accessory protein.

Westin L, Reuss M, Lindskog M, Aperia A, Brismar H

BMC Neurosci 15 (-) 45 [2014-03-26; online 2014-03-26]

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Neuronal calcium-binding proteins 1/2 localize to dorsal root ganglia and excitatory spinal neurons and are regulated by nerve injury.

Zhang MD, Tortoriello G, Hsueh B, ..., Harkany T, Hökfelt TG

Proc. Natl. Acad. Sci. U.S.A. 111 (12) E1149-E1158 [2014-03-25; online 2014-03-10]

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An international effort towards developing standards for best practices in analysis, interpretation and reporting of clinical genome sequencing results in the CLARITY Challenge.

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Genome Biol. 15 (3) R53 [2014-03-25; online 2014-03-25]

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Arabidopsis replacement histone variant H3.3 occupies promoters of regulated genes.

Shu H, Nakamura M, Siretskiy A, ..., Gruissem W, Hennig L

Genome Biol. 15 (4) R62 [2014-03-21; online 2014-03-21]

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Alternative polyadenylation diversifies post-transcriptional regulation by selective RNA-protein interactions

Gupta I, Clauder-Munster S, Klaus B, ..., Pelechano V, Steinmetz LM

Mol Syst Biol 10 (2) 719-719 [2014-03-20; online 2014-02-25]

SciLifeLab Fellow Vicent Pelechano

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Genome-wide copy number variant discovery in dogs using the CanineHD genotyping array.

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BMC Genomics 15 (-) 210 [2014-03-19; online 2014-03-19]

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Comprehensive profiling of the vaginal microbiome in HIV positive women using massive parallel semiconductor sequencing.

Ameur A, Meiring TL, Bunikis I, ..., Williamson AL, Gyllensten U

Sci Rep 4 (-) 4398 [2014-03-18; online 2014-03-18]

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Two-Color RESOLFT Nanoscopy with Green and Red Fluorescent Photochromic Proteins

Lavoie-Cardinal F, Jensen NA, Westphal V, ..., Jakobs S, Hell SW

ChemPhysChem 15 (4) 655-663 [2014-03-17; online 2014-01-21]

Ilaria Testa SciLifeLab Fellow

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Myeloid suppressors decrease melanoma survival by abating tumor-fighting T cells.

Kiessling R, Mao Y, Pico de Coaña Y

Clin. Cancer Res. 20 (6) 1401-1403 [2014-03-15; online 2014-02-13]

SciLifeLab Fellow Yumeng Mao

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Sequencing degraded RNA addressed by 3' tag counting.

Sigurgeirsson B, Emanuelsson O, Lundeberg J

PLoS ONE 9 (3) e91851 [2014-03-14; online 2014-03-14]

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Candidate genes and functional noncoding variants identified in a canine model of obsessive-compulsive disorder.

Tang R, Noh HJ, Wang D, ..., Lindblad-Toh K, Karlsson EK

Genome Biol. 15 (3) R25 [2014-03-14; online 2014-03-14]

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Production of squalene in Synechocystis sp. PCC 6803.

Englund E, Pattanaik B, Ubhayasekera SJ, ..., Bergquist J, Lindberg P

PLoS ONE 9 (3) e90270 [2014-03-13; online 2014-03-13]

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An improved canine genome and a comprehensive catalogue of coding genes and non-coding transcripts.

Hoeppner MP, Lundquist A, Pirun M, ..., Lindblad-Toh K, Grabherr MG

PLoS ONE 9 (3) e91172 [2014-03-13; online 2014-03-13]

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Probing physical properties of a DNA-protein complex using nanofluidic channels.

Frykholm K, Alizadehheidari M, Fritzsche J, ..., Persson F, Westerlund F

Small 10 (5) 884-887 [2014-03-12; online 2014-01-02]

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A maternal de novo non-reciprocal translocation results in a 6q13-q16 deletion in one offspring and a 6q13-q16 duplication in another.

Wentzel C, Annerén G, Thuresson AC

Eur J Med Genet 57 (6) 259-263 [2014-03-12; online 2014-03-12]

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Detection of viral proteins in human cells lines by xeno-proteomics: elimination of the last valid excuse for not testing every cellular proteome dataset for viral proteins.

Chernobrovkin AL, Zubarev RA

PLoS ONE 9 (3) e91433 [2014-03-11; online 2014-03-11]

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A Generic Method for Design of Oligomer-Specific Antibodies

Brännström K, Lindhagen-Persson M, Gharibyan AL, ..., Forsgren L, Olofsson A

PLoS ONE 9 (3) e90857 [2014-03-11; online 2014-03-11]

Mikael Sellin SciLifeLab Fellow

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Knock-down of CD44 regulates endothelial cell differentiation via NFκB-mediated chemokine production.

Olofsson B, Porsch H, Heldin P

PLoS ONE 9 (3) e90921 [2014-03-10; online 2014-03-10]

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Distinct Migration and Contact Dynamics of Resting and IL-2-Activated Human Natural Killer Cells.

Olofsson PE, Forslund E, Vanherberghen B, ..., Everhorn T, Onfelt B

Front Immunol 5 (-) 80 [2014-03-07; online 2014-03-07]

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Automated analysis of dynamic behavior of single cells in picoliter droplets.

Khorshidi MA, Rajeswari PK, Wählby C, Joensson HN, Andersson Svahn H

Lab Chip 14 (5) 931-937 [2014-03-07; online 2014-01-05]

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A chromosome-centric analysis of antibodies directed toward the human proteome using Antibodypedia.

Alm T, von Feilitzen K, Lundberg E, Sivertsson Å, Uhlén M

J. Proteome Res. 13 (3) 1669-1676 [2014-03-07; online 2014-02-17]

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Priors for X-ray in-line phase tomography of heterogeneous objects.

Langer M, Cloetens P, Hesse B, ..., Raum K, Peyrin F

Philos Trans A Math Phys Eng Sci 372 (2010) 20130129 [2014-03-06; online 2014-01-27]

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Allogeneic lymphocyte-licensed DCs expand T cells with improved antitumor activity and resistance to oxidative stress and immunosuppressive factors.

Jin C, Yu D, Hillerdal V, ..., Karlsson-Parra A, Essand M

Mol Ther Methods Clin Dev 1 (-) 14001 [2014-03-05; online 2014-03-05]

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Molecular- and organelle-based predictive paradigm underlying recovery by left ventricular assist device support.

Liem DA, Nsair A, Setty SP, ..., Ping P, Deng MC

Circ Heart Fail 7 (2) 359-366 [2014-03-01; online 2014-03-20]

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A study of embryonic stem cell-related proteins in human astrocytomas: identification of Nanog as a predictor of survival.

Elsir T, Edqvist PH, Carlson J, ..., Nistér M, Smits A

Int. J. Cancer 134 (5) 1123-1131 [2014-03-01; online 2013-09-16]

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A mutation interfering with 5-lipoxygenase domain interaction leads to increased enzyme activity.

Rakonjac Ryge M, Tanabe M, Provost P, ..., Samuelsson B, Rådmark O

Arch. Biochem. Biophys. 545 (-) 179-185 [2014-03-01; online 2014-01-28]

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The Dictyostelium discoideum RNA-dependent RNA polymerase RrpC silences the centromeric retrotransposon DIRS-1 post-transcriptionally and is required for the spreading of RNA silencing signals.

Wiegand S, Meier D, Seehafer C, ..., Söderbom F, Hammann C

Nucleic Acids Res. 42 (5) 3330-3345 [2014-03-00; online 2013-12-24]

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Targeting the PDGF signaling pathway in the treatment of non-malignant diseases.

Heldin CH

J Neuroimmune Pharmacol 9 (2) 69-79 [2014-03-00; online 2013-06-25]

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Relationship among Insulin Resistance, Growth Hormone, and Insulin-Like Growth Factor I Concentrations in Diestrous Swedish Elkhounds

Strage EM, Lewitt MS, Hanson JM, ..., Holst BS, Fall T

J Vet Intern Med 28 (2) 419-428 [2014-03-00; online 2014-02-03]

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Quantitative imaging of serotonergic biosynthesis and degradation in the endocrine pancreas.

Eriksson O, Selvaraju RK, Johansson L, ..., Eriksson B, Korsgren O

Journal of nuclear medicine : official publication, Society of Nuclear Medicine 55 (3) 460-465 [2014-03-00; online 2014-02-13]

Olof Eriksson SciLifeLab Fellow

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Proteome screening of pleural effusions identifies galectin 1 as a diagnostic biomarker and highlights several prognostic biomarkers for malignant mesothelioma.

Mundt F, Johansson HJ, Forshed J, ..., Lehtiö J, Hjerpe A

Mol. Cell Proteomics 13 (3) 701-715 [2014-03-00; online 2013-12-20]

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Novel association of neurofibromatosis type 1-causing mutations in families with neurofibromatosis-Noonan syndrome.

Ekvall S, Sjörs K, Jonzon A, ..., Annerén G, Bondeson ML

Am. J. Med. Genet. A 164A (3) 579-587 [2014-03-00; online 2013-12-19]

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Melanocortin 1 Receptor-derived peptides are efficiently recognized by cytotoxic T lymphocytes from melanoma patients.

González FE, Ramírez M, Allerbring EB, ..., Achour A, Salazar-Onfray F

Immunobiology 219 (3) 189-197 [2014-03-00; online 2013-10-12]

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Kidney injury molecule (KIM)-1 is associated with insulin resistance: results from two community-based studies of elderly individuals.

Carlsson AC, Calamia M, Risérus U, ..., Lind L, Arnlöv J

Diabetes Res. Clin. Pract. 103 (3) 516-521 [2014-03-00; online 2013-12-25]

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Keratin-18 and microRNA-122 complement alanine aminotransferase as novel safety biomarkers for drug-induced liver injury in two human cohorts.

Thulin P, Nordahl G, Gry M, ..., Glinghammar B, Schuppe-Koistinen I

Liver Int. 34 (3) 367-378 [2014-03-00; online 2013-10-14]

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Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility.

DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium , Asian Genetic Epidemiology Network Type 2 Diabetes (AGEN-T2D) Consortium , South Asian Type 2 Diabetes (SAT2D) Consortium , ..., McCarthy MI, Morris AP

Nat. Genet. 46 (3) 234-244 [2014-03-00; online 2014-02-09]

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FTO genetic variants and risk of obesity and type 2 diabetes: a meta-analysis of 28,394 Indians.

Vasan SK, Karpe F, Gu HF, ..., Ingelsson E, Fall T

Obesity (Silver Spring) 22 (3) 964-970 [2014-03-00; online 2013-09-20]

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Enhanced therapeutic anti-tumor immunity induced by co-administration of 5-fluorouracil and adenovirus expressing CD40 ligand.

Liljenfeldt L, Gkirtzimanaki K, Vyrla D, ..., Loskog AS, Eliopoulos AG

Cancer Immunol. Immunother. 63 (3) 273-282 [2014-03-00; online 2013-12-20]

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Differentially methylated regions in maternal and paternal uniparental disomy for chromosome 7.

Hannula-Jouppi K, Muurinen M, Lipsanen-Nyman M, ..., Greco D, Kere J

Epigenetics 9 (3) 351-365 [2014-03-00; online 2013-11-18]

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Can pharmaco-electroencephalography help improve survival of central nervous system drugs in early clinical development?

Wilson FJ, Leiser SC, Ivarsson M, Christensen SR, Bastlund JF

Drug Discov. Today 19 (3) 282-288 [2014-03-00; online 2013-08-14]

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Assessing causality in the association between child adiposity and physical activity levels: a Mendelian randomization analysis.

Richmond RC, Davey Smith G, Ness AR, ..., McMahon G, Timpson NJ

PLoS Med. 11 (3) e1001618 [2014-03-00; online 2014-03-18]

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Antibody performance in western blot applications is context-dependent.

Algenäs C, Agaton C, Fagerberg L, ..., Ottosson Takanen J, Hober S

Biotechnol J 9 (3) 435-445 [2014-03-00; online 2014-01-29]

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Functional tradeoffs underpin salinity-driven divergence in microbial community composition.

Dupont CL, Larsson J, Yooseph S, ..., Venter JC, Bergman B

PLoS ONE 9 (2) e89549 [2014-02-27; online 2014-02-27]

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Expression and prognostic significance of the polymeric immunoglobulin receptor in epithelial ovarian cancer.

Berntsson J, Lundgren S, Nodin B, ..., Gaber A, Jirström K

J Ovarian Res 7 (-) 26 [2014-02-26; online 2014-02-26]

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Gold nanowire based electrical DNA detection using rolling circle amplification.

Russell C, Welch K, Jarvius J, ..., Svedlindh P, Nilsson M

ACS Nano 8 (2) 1147-1153 [2014-02-25; online 2014-01-23]

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High-throughput screening for industrial enzyme production hosts by droplet microfluidics.

Sjostrom SL, Bai Y, Huang M, ..., Joensson HN, Andersson Svahn H

Lab Chip 14 (4) 806-813 [2014-02-21; online 2013-12-25]

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Alterations of mass density and 3D osteocyte lacunar properties in bisphosphonate-related osteonecrotic human jaw bone, a synchrotron µCT study.

Hesse B, Langer M, Varga P, ..., Raum K, Peyrin F

PLoS ONE 9 (2) e88481 [2014-02-21; online 2014-02-21]

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A Cyclic Nucleotide-Gated Channel Mutation Associated with Canine Daylight Blindness Provides Insight into a Role for the S2 Segment Tri-Asp motif in Channel Biogenesis

Tanaka N, Delemotte L, Klein ML, Komáromy AM, Tanaka JC

PLoS ONE 9 (2) e88768 [2014-02-21; online 2014-02-21]

Lucie Delemotte SciLifeLab Fellow

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The environmental release and fate of antibiotics.

Manzetti S, Ghisi R

Mar. Pollut. Bull. 79 (1-2) 7-15 [2014-02-15; online 2014-01-20]

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BET bromodomain inhibition of MYC-amplified medulloblastoma.

Bandopadhayay P, Bergthold G, Nguyen B, ..., Beroukhim R, Cho YJ

Clin. Cancer Res. 20 (4) 912-925 [2014-02-15; online 2013-12-02]

Affiliated researcher

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The genome of a Late Pleistocene human from a Clovis burial site in western Montana.

Rasmussen M, Anzick SL, Waters MR, ..., Nielsen R, Willerslev E

Nature 506 (7487) 225-229 [2014-02-13; online 2014-02-14]

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Genetic Encoding of Photocaged Cysteine Allows Photoactivation of TEV Protease in Live Mammalian Cells

Nguyen DP, Mahesh M, Elsässer SJ, ..., Uttamapinant C, Chin JW

J. Am. Chem. Soc. 136 (6) 2240-2243 [2014-02-12; online 2014-01-30]

SciLifeLab Fellow Simon Elsässer

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Thiamin function, metabolism, uptake, and transport.

Manzetti S, Zhang J, van der Spoel D

Biochemistry 53 (5) 821-835 [2014-02-11; online 2014-01-31]

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Structural and functional insights into peptidoglycan access for the lytic amidase LytA of Streptococcus pneumoniae.

Mellroth P, Sandalova T, Kikhney A, ..., Henriques-Normark B, Achour A

MBio 5 (1) e01120-e01113 [2014-02-11; online 2014-02-11]

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Sequential pH-driven dimerization and stabilization of the N-terminal domain enables rapid spider silk formation.

Kronqvist N, Otikovs M, Chmyrov V, ..., Jaudzems K, Johansson J

Nat Commun 5 (-) 3254 [2014-02-11; online 2014-02-11]

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Separating endogenous ancient DNA from modern day contamination in a Siberian Neandertal.

Skoglund P, Northoff BH, Shunkov MV, ..., Krause J, Jakobsson M

Proc. Natl. Acad. Sci. U.S.A. 111 (6) 2229-2234 [2014-02-11; online 2014-01-27]

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Prognostic polypeptide blood plasma biomarkers of Alzheimer's disease progression.

Yang H, Lyutvinskiy Y, Herukka SK, ..., Rutishauser D, Zubarev RA

J. Alzheimers Dis. 40 (3) 659-666 [2014-02-08; online 2014-02-08]

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Identification of novel downstream molecules of tissue factor activation by comparative proteomic analysis.

Kask L, Jorsback A, Winkvist M, ..., Bergquist J, Siegbahn A

J. Proteome Res. 13 (2) 477-488 [2014-02-07; online 2013-12-11]

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Fast and accurate database searches with MS-GF+Percolator.

Granholm V, Kim S, Navarro JC, ..., Smith RD, Käll L

J. Proteome Res. 13 (2) 890-897 [2014-02-07; online 2013-12-23]

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Concerted or stepwise: how much do free-energy landscapes tell us about the mechanisms of elimination reactions?

Duarte F, Gronert S, Kamerlin SC

J. Org. Chem. 79 (3) 1280-1288 [2014-02-07; online 2014-01-24]

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Variation in the MC4R gene is associated with bone phenotypes in elderly Swedish women.

Garg G, Kumar J, McGuigan FE, ..., Luthman H, Åkesson K

PLoS ONE 9 (2) e88565 [2014-02-06; online 2014-02-06]

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Visual detection of DNA on paper chips.

Song Y, Gyarmati P, Araújo AC, ..., Brumer H, Ståhl PL

Anal. Chem. 86 (3) 1575-1582 [2014-02-04; online 2014-01-17]

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Removal of total organic carbon from sewage wastewater using poly(ethylenimine)-functionalized magnetic nanoparticles.

Lakshmanan R, Sanchez-Dominguez M, Matutes-Aquino JA, Wennmalm S, Kuttuva Rajarao G

Langmuir 30 (4) 1036-1044 [2014-02-04; online 2014-01-24]

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Rhizaria.

Burki F, Keeling PJ

Curr. Biol. 24 (3) R103-R107 [2014-02-03; online 2014-02-08]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Differentially expressed proteins in malignant and benign adrenocortical tumors.

Kjellin H, Johansson H, Höög A, ..., Jakobsson PJ, Kjellman M

PLoS ONE 9 (2) e87951 [2014-02-03; online 2014-02-03]

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Remodelling chromatin to shape development of plants.

Gentry M, Hennig L

Exp. Cell Res. 321 (1) 40-46 [2014-02-01; online 2013-11-20]

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WNT10A mutations account for ¼ of population-based isolated oligodontia and show phenotypic correlations.

Arzoo PS, Klar J, Bergendal B, Norderyd J, Dahl N

Am. J. Med. Genet. A 164A (2) 353-359 [2014-02-00; online 2013-11-25]

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The genome of Spironucleus salmonicida highlights a fish pathogen adapted to fluctuating environments.

Xu F, Jerlström-Hultqvist J, Einarsson E, ..., Svärd SG, Andersson JO

PLoS Genet 10 (2) e1004053 [2014-02-00; online 2014-02-06]

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Successful enrichment of the ubiquitous freshwater acI Actinobacteria.

Garcia SL, McMahon KD, Grossart HP, Warnecke F

Environ Microbiol Rep 6 (1) 21-27 [2014-02-00; online 2013-11-10]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

Subtyping of gliomas of various WHO grades by the application of immunohistochemistry.

Popova SN, Bergqvist M, Dimberg A, ..., Sooman L, Alafuzoff I

Histopathology 64 (3) 365-379 [2014-02-00; online 2013-11-05]

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Plasma cholesterol-induced lesion networks activated before regression of early, mature, and advanced atherosclerosis.

Björkegren JL, Hägg S, Talukdar HA, ..., Michoel T, Skogsberg J

PLoS Genet 10 (2) e1004201 [2014-02-00; online 2014-02-27]

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On an early gene for membrane-integral inorganic pyrophosphatase in the genome of an apparently pre-luca extremophile, the archaeon Candidatus Korarchaeum cryptofilum.

Baltscheffsky H, Persson B

J. Mol. Evol. 78 (2) 140-147 [2014-02-00; online 2014-01-30]

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Natural polymorphisms in Tap2 influence negative selection and CD4∶CD8 lineage commitment in the rat.

Tuncel J, Haag S, Yau AC, ..., Flint J, Holmdahl R

PLoS Genet 10 (2) e1004151 [2014-02-00; online 2014-02-20]

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Mitigating aggressiveness through education? The monoamine oxidase A genotype and mental health in general population.

Kiive E, Laas K, Akkermann K, ..., Veidebaum T, Harro J

Acta Neuropsychiatr 26 (1) 19-28 [2014-02-00; online 2014-08-22]

Erika Comasco SciLifeLab Fellow

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Lymphoma development in patients with autoimmune and inflammatory disorders--what are the driving forces?

Baecklund E, Smedby KE, Sutton LA, Askling J, Rosenquist R

Semin. Cancer Biol. 24 (-) 61-70 [2014-02-00; online 2013-12-10]

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Imaging of platelet-derived growth factor receptor β expression in glioblastoma xenografts using affibody molecule 111In-DOTA-Z09591.

Tolmachev V, Varasteh Z, Honarvar H, ..., Abrahmsen L, Orlova A

Journal of nuclear medicine : official publication, Society of Nuclear Medicine 55 (2) 294-300 [2014-02-00; online 2014-01-09]

Olof Eriksson SciLifeLab Fellow

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Evolutionary imprint of activation: The design principles of VSDs

Palovcak E, Delemotte L, Klein ML, Carnevale V

J Gen Physiol 143 (2) 145-156 [2014-02-00; online 2014-01-27]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Endosymbiotic Gene Transfer in Tertiary Plastid-Containing Dinoflagellates

Burki F, Imanian B, Hehenberger E, ..., Maruyama S, Keeling PJ

Eukaryotic Cell 13 (2) 246-255 [2014-02-00; online 2013-12-02]

Fabien Burki SciLifeLab Fellow

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Distribution of acI-Actinorhodopsin genes in Baltic Sea salinity gradients indicates adaptation of facultative freshwater photoheterotrophs to brackish waters.

Salka I, Wurzbacher C, Garcia SL, ..., Jürgens K, Grossart HP

Environ. Microbiol. 16 (2) 586-597 [2014-02-00; online 2013-07-10]

Sarahi Garcia SciLifeLab Fellow

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Development of a coordinated allo T cell and auto B cell response against autosomal PTK2B after allogeneic hematopoietic stem cell transplantation.

Kremer AN, van der Griendt JC, van der Meijden ED, ..., Falkenburg JH, Griffioen M

Haematologica 99 (2) 365-369 [2014-02-00; online 2013-10-04]

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Collecting and preserving biological samples from challenging environments for DNA analysis.

Buś MM, Allen M

Biopreserv Biobank 12 (1) 17-22 [2014-02-00; online 2014-03-14]

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Canine hereditary ataxia in old english sheepdogs and gordon setters is associated with a defect in the autophagy gene encoding RAB24.

Agler C, Nielsen DM, Urkasemsin G, ..., Steinberg S, Olby NJ

PLoS Genet 10 (2) e1003991 [2014-02-00; online 2014-02-06]

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Androgen levels during adjuvant endocrine therapy in postmenopausal breast cancer patients.

Baumgart J, Nilsson K, Stavreus Evers A, ..., Bergquist J, Sundström Poromaa I

Climacteric 17 (1) 48-54 [2014-02-00; online 2013-06-28]

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Analysis of the Human Tissue-specific Expression by Genome-wide Integration of Transcriptomics and Antibody-based Proteomics

Fagerberg L, Hallström BM, Oksvold P, ..., Ponten F, Uhlén M

Mol Cell Proteomics 13 (2) 397-406 [2014-02-00; online 2013-12-05]

Adil Mardinoglu Affiliated researcher SciLifeLab Fellow

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A variant upstream of HLA-DRB1 and multiple variants in MICA influence susceptibility to cervical cancer in a Swedish population.

Chen D, Hammer J, Lindquist D, Idahl A, Gyllensten U

Cancer Med 3 (1) 190-198 [2014-02-00; online 2014-01-07]

Affiliated researcher

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Wolbachia divergence and the evolution of cytoplasmic incompatibility in Culex pipiens.

Atyame CM, Labbé P, Dumas E, ..., Fort P, Weill M

PLoS ONE 9 (1) e87336 [2014-01-31; online 2014-01-31]

Pascal Milesi SciLifeLab Fellow

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An efficient and extensible format, library, and API for binary trajectory data from molecular simulations.

Lundborg M, Apostolov R, Spångberg D, ..., van der Spoel D, Lindahl E

J Comput Chem 35 (3) 260-269 [2014-01-30; online 2013-11-20]

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Immunological shielding by induced recruitment of regulatory T-lymphocytes delays rejection of islets transplanted in muscle.

Vågesjö E, Christoffersson G, Waldén TB, ..., Korsgren O, Phillipson M

Cell Transplant 24 (2) 263-276 [2014-01-29; online 2014-01-29]

Gustaf Christoffersson SciLifeLab Fellow

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Effect of size, composition, and morphology on magnetic performance: First-order reversal curves evaluation of iron oxide nanoparticles

Hirt AM, Sotiriou GA, Kidambi PR, Teleki A

Journal of Applied Physics 115 (4) 044314 [2014-01-28; online 2014-01-28]

Alexandra Teleki SciLifeLab Fellow

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Clonal culturing of human embryonic stem cells on laminin-521/E-cadherin matrix in defined and xeno-free environment.

Rodin S, Antonsson L, Niaudet C, ..., Hovatta O, Tryggvason K

Nat Commun 5 (-) 3195 [2014-01-28; online 2014-01-28]

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Silencing motifs in the Clr2 protein from fission yeast, Schizosaccharomyces pombe.

Steinhauf D, Rodriguez A, Vlachakis D, ..., Bongcam-Rudloff E, Bjerling P

PLoS ONE 9 (1) e86948 [2014-01-27; online 2014-01-27]

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Design and analysis of LacI-repressed promoters and DNA-looping in a cyanobacterium.

Camsund D, Heidorn T, Lindblad P

J Biol Eng 8 (1) 4 [2014-01-27; online 2014-01-27]

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Generation of HER2 monoclonal antibodies using epitopes of a rabbit polyclonal antibody.

Hu FJ, Uhlen M, Rockberg J

N Biotechnol 31 (1) 35-43 [2014-01-25; online 2013-10-11]

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Metabolic enzyme expression highlights a key role for MTHFD2 and the mitochondrial folate pathway in cancer.

Nilsson R, Jain M, Madhusudhan N, ..., Asplund A, Mootha VK

Nat Commun 5 (-) 3128 [2014-01-24; online 2014-01-24]

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Host-specificity and dynamics in bacterial communities associated with Bloom-forming freshwater phytoplankton.

Bagatini IL, Eiler A, Bertilsson S, ..., Tessarolli LP, Vieira AA

PLoS ONE 9 (1) e85950 [2014-01-20; online 2014-01-20]

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Quantitative accuracy in mass spectrometry based proteomics of complex samples: the impact of labeling and precursor interference.

Sandberg A, Branca RM, Lehtiö J, Forshed J

J Proteomics 96 (-) 133-144 [2014-01-16; online 2013-11-05]

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Mice lacking NMDA receptors in parvalbumin neurons display normal depression-related behavior and response to antidepressant action of NMDAR antagonists.

Pozzi L, Pollak Dorocic I, Dorocic IP, ..., Carlén M, Meletis K

PLoS ONE 9 (1) e83879 [2014-01-16; online 2014-01-16]

Iskra Pollak Dorocic SciLifeLab Fellow

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Inefficient SRP interaction with a nascent chain triggers a mRNA quality control pathway.

Karamyshev AL, Patrick AE, Karamysheva ZN, ..., Johnson AE, Thomas PJ

Cell 156 (1-2) 146-157 [2014-01-16; online 2014-01-21]

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The basic keratin 10-binding domain of the virulence-associated pneumococcal serine-rich protein PsrP adopts a novel MSCRAMM fold.

Schulte T, Löfling J, Mikaelsson C, ..., Henriques-Normark B, Achour A

Open Biol 4 (-) 130090 [2014-01-15; online 2014-01-15]

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HSF1 at a glance.

Vihervaara A, Sistonen L

J. Cell. Sci. 127 (Pt 2) 261-266 [2014-01-15; online 2014-01-15]

Anniina Vihervaara SciLifeLab Fellow

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Kinks, loops, and protein folding, with protein A as an example.

Krokhotin A, Liwo A, Maisuradze GG, Niemi AJ, Scheraga HA

J Chem Phys 140 (2) 025101 [2014-01-14; online 2014-01-21]

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An N-Terminal Missense Mutation in STX11 Causative of FHL4 Abrogates Syntaxin-11 Binding to Munc18-2.

Müller ML, Chiang SC, Meeths M, ..., Naqvi A, Bryceson YT

Front Immunol 4 (-) 515 [2014-01-14; online 2014-01-14]

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High rates of gene flow by pollen and seed in oak populations across Europe.

Gerber S, Chadœuf J, Gugerli F, ..., Vendramin GG, Kremer A

PLoS ONE 9 (1) e85130 [2014-01-13; online 2014-01-13]

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Dynamic heterogeneity controls diffusion and viscosity near biological interfaces.

Pronk S, Lindahl E, Kasson PM

Nat Commun 5 (-) 3034 [2014-01-09; online 2014-01-09]

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TRAF6 stimulates the tumor-promoting effects of TGFβ type I receptor through polyubiquitination and activation of presenilin 1.

Gudey SK, Sundar R, Mu Y, ..., Heldin CH, Landström M

Sci Signal 7 (307) ra2 [2014-01-07; online 2014-01-07]

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Fragmentation of positively-charged biological ions activated with a beam of high-energy cations.

Chingin K, Makarov A, Denisov E, Rebrov O, Zubarev RA

Anal. Chem. 86 (1) 372-379 [2014-01-07; online 2013-12-13]

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Assessment of whole genome amplification for sequence capture and massively parallel sequencing.

Hasmats J, Gréen H, Orear C, ..., Käller M, Lundeberg J

PLoS ONE 9 (1) e84785 [2014-01-07; online 2014-01-07]

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Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans.

Raghavan M, Skoglund P, Graf KE, ..., Jakobsson M, Willerslev E

Nature 505 (7481) 87-91 [2014-01-02; online 2013-11-20]

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Dominant mutations in GRHL3 cause Van der Woude Syndrome and disrupt oral periderm development.

Peyrard-Janvid M, Leslie EJ, Kousa YA, ..., Kere J, Schutte BC

Am. J. Hum. Genet. 94 (1) 23-32 [2014-01-02; online 2013-12-19]

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Multi-fragment site-directed mutagenic overlap extension polymerase chain reaction as a competitive alternative to the enzymatic assembly method.

Wäneskog M, Bjerling P

Anal. Biochem. 444 (-) 32-37 [2014-01-01; online 2013-09-29]

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Acute sleep deprivation increases serum levels of neuron-specific enolase (NSE) and S100 calcium binding protein B (S-100B) in healthy young men.

Benedict C, Cedernaes J, Giedraitis V, ..., Zetterberg H, Schiöth HB

Sleep 37 (1) 195-198 [2014-01-01; online 2014-01-01]

Gustaf Christoffersson SciLifeLab Fellow

PubMed DOI Crossref

The Database of Genomic Variants: a curated collection of structural variation in the human genome.

MacDonald JR, Ziman R, Yuen RK, Feuk L, Scherer SW

Nucleic Acids Res. 42 (Database issue) D986-D992 [2014-01-00; online 2013-10-29]

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Protein biomarkers in vernix with potential to predict the development of atopic eczema in early childhood.

Holm T, Rutishauser D, Kai-Larsen Y, ..., Alm J, Scheynius A

Allergy 69 (1) 104-112 [2014-01-00; online 2013-11-11]

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Plasma autoantibodies against apolipoprotein B-100 peptide 210 in subclinical atherosclerosis.

McLeod O, Silveira A, Fredrikson GN, ..., Nilsson J, Hamsten A

Atherosclerosis 232 (1) 242-248 [2014-01-00; online 2013-11-23]

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Pfam: the protein families database.

Finn RD, Bateman A, Clements J, ..., Tate J, Punta M

Nucleic Acids Res. 42 (Database issue) D222-D230 [2014-01-00; online 2013-11-27]

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Parametric elastic analysis of coupled helical coils for tubular implant applications: experimental characterization and numerical analysis.

Huo J, Rojas R, Bohlin J, Hilborn J, Gamstedt EK

J Mech Behav Biomed Mater 29 (-) 462-469 [2014-01-00; online 2013-10-21]

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On the use of [18F]DOPA as an imaging biomarker for transplanted islet mass.

Eriksson O, Mintz A, Liu C, ..., Naji A, Alavi A

Annals of nuclear medicine 28 (1) 47-52 [2014-01-00; online 2013-10-29]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Magnetic bead assisted labeling of antibodies at nanogram scale.

Dezfouli M, Vickovic S, Iglesias MJ, ..., Schwenk JM, Ahmadian A

Proteomics 14 (1) 14-18 [2014-01-00; online 2013-12-04]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

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HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics.

Branca RM, Orre LM, Johansson HJ, ..., Käll L, Lehtiö J

Nat. Methods 11 (1) 59-62 [2014-01-00; online 2013-11-17]

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FuseFISH: Robust Detection of Transcribed Gene Fusions in Single Cells

Semrau S, Crosetto N, Bienko M, ..., Chiarle R, van Oudenaarden A

Cell Reports 6 (1) 18-23 [2014-01-00; online 2014-01-00]

Magda Bienko SciLifeLab Fellow

PubMed DOI Crossref

FunCoup 3.0: database of genome-wide functional coupling networks.

Schmitt T, Ogris C, Sonnhammer EL

Nucleic Acids Res. 42 (Database issue) D380-D388 [2014-01-00; online 2013-10-31]

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Establishment and characterization of a primary and a metastatic melanoma cell line from Grey horses.

Seltenhammer MH, Sundström E, Meisslitzer-Ruppitsch C, ..., Vetterlein M, Golovko A

In Vitro Cell. Dev. Biol. Anim. 50 (1) 56-65 [2014-01-00; online 2013-08-28]

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Different mutations in PDE4D associated with developmental disorders with mirror phenotypes.

Lindstrand A, Grigelioniene G, Nilsson D, ..., Mäkitie O, Nordgren A

J. Med. Genet. 51 (1) 45-54 [2014-01-00; online 2013-11-07]

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Detection of the human endogenous retrovirus ERV3-encoded Env-protein in human tissues using antibody-based proteomics.

Fei C, Atterby C, Edqvist PH, ..., Larsson E, Ryan FP

J R Soc Med 107 (1) 22-29 [2014-01-00; online 2013-11-21]

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DNA methylation changes separate allergic patients from healthy controls and may reflect altered CD4+ T-cell population structure.

Nestor CE, Barrenäs F, Wang H, ..., Gustafsson M, Benson M

PLoS Genet 10 (1) e1004059 [2014-01-00; online 2014-01-02]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

BacMet: antibacterial biocide and metal resistance genes database.

Pal C, Bengtsson-Palme J, Rensing C, Kristiansson E, Larsson DG

Nucleic Acids Res. 42 (Database issue) D737-D743 [2014-01-00; online 2013-12-03]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Avoiding pitfalls in gene (co)expression meta-analysis.

Ostlund G, Sonnhammer EL

Genomics 103 (1) 21-30 [2014-01-00; online 2013-10-30]

Affiliated researcher

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Association and Mutation Analyses of the IRF6 Gene in Families With Nonsyndromic and Syndromic Cleft Lip and/or Cleft Palate.

Pegelow M, Koillinen H, Magnusson M, ..., Karsten A, Peyrard-Janvid M

Cleft Palate Craniofac. J. 51 (1) 49-55 [2014-01-00; online 2013-02-08]

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Approaches for the analysis of low molecular weight compounds with laser desorption/ionization techniques and mass spectrometry.

Bergman N, Shevchenko D, Bergquist J

Anal Bioanal Chem 406 (1) 49-61 [2014-01-00; online 2013-12-10]

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A systematic analysis of commonly used antibodies in cancer diagnostics.

Gremel G, Bergman J, Djureinovic D, ..., Micke P, Pontén F

Histopathology 64 (2) 293-305 [2014-01-00; online 2013-11-05]

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A magnetic nanobead-based bioassay provides sensitive detection of single- and biplex bacterial DNA using a portable AC susceptometer.

Strömberg M, Zardán Gómez de la Torre T, Nilsson M, Svedlindh P, Strømme M

Biotechnol J 9 (1) 137-145 [2014-01-00; online 2013-12-19]

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Thermodynamics of hydronium and hydroxide surface solvation

Hub JS, Wolf MG, Caleman C, ..., Groenhof G, van der Spoel D

Chem Sci 5 (5) 1745 [2014-00-00; online 2014-00-00]

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Sensitive detection of C. parvum using near infrared emitting Ag2S@silica core–shell nanospheres

Srinivasan K, Thiruppathiraja C, Subramanian K, Dinakaran K

RSC Adv. 4 (107) 62399-62403 [2014-00-00; online 2014-00-00]

Affiliated researcher

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Scaling-up the production of recombinant Moringa oleifera coagulant protein for large-scale water treatment applications

Pavankumar AR, Norén J, Singh L, Chandappa Gowda NK

RSC Adv. 4 (14) 7136-7141 [2014-00-00; online 2014-00-00]

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Native and functionalized micrometre-sized cellulose capsules prepared by microfluidic flow focusing

Carrick C, Larsson PA, Brismar H, Aidun C, Wågberg L

RSC Adv. 4 (37) 19061-19067 [2014-00-00; online 2014-00-00]

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Metaxa, Overview

Bengtsson-Palme J, Hartmann M, Eriksson KM, Nilsson RH

Encyclopedia of Metagenomics - (-) 1-5 [2014-00-00; online 2014-04-16]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Dynamic remodeling of histone modifications in response to osmotic stress in Saccharomyces cerevisiae

Magraner-Pardo L, Pelechano V, Coloma M, Tordera V

BMC Genomics 15 (1) 247 [2014-00-00; online 2014-00-00]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Characterization of VCAM-1-binding peptide-functionalized quantum dots for molecular imaging of inflamed endothelium.

Chen Y, Molnár M, Li L, ..., Brismar H, Fu Y

PLoS ONE 8 (12) e83805 [2013-12-31; online 2013-12-31]

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PubMed DOI Crossref

Organocatalyzed stereospecific C-C bond formation of β-lactams.

Pawar SA, Alapour S, Khanyase S, ..., Govender T, Arvidsson PI

Org. Biomol. Chem. 11 (48) 8294-8297 [2013-12-28; online 2013-11-11]

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Association of STAT4 polymorphism with severe renal insufficiency in lupus nephritis.

Bolin K, Sandling JK, Zickert A, ..., Gunnarsson I, Nordmark G

PLoS ONE 8 (12) e84450 [2013-12-27; online 2013-12-27]

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Targeting the PDGF signaling pathway in tumor treatment.

Heldin CH

Cell Commun. Signal 11 (-) 97 [2013-12-20; online 2013-12-20]

Affiliated researcher

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Omega Currents in Voltage-Gated Ion Channels: What Can We Learn from Uncovering the Voltage-Sensing Mechanism Using MD Simulations?

Tarek M, Delemotte L

Acc. Chem. Res. 46 (12) 2755-2762 [2013-12-17; online 2013-05-22]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Local partition coefficients govern solute permeability of cholesterol-containing membranes.

Zocher F, van der Spoel D, Pohl P, Hub JS

Biophys. J. 105 (12) 2760-2770 [2013-12-17; online 2013-12-24]

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Profiling post-centrifugation delay of serum and plasma with antibody bead arrays.

Qundos U, Hong MG, Tybring G, ..., Nilsson P, Schwenk JM

J Proteomics 95 (-) 46-54 [2013-12-16; online 2013-04-28]

Affiliated researcher

PubMed DOI Crossref

SMG-1 suppresses CDK2 and tumor growth by regulating both the p53 and Cdc25A signaling pathways.

Gubanova E, Issaeva N, Gokturk C, Djureinovic T, Helleday T

Cell Cycle 12 (24) 3770-3780 [2013-12-15; online 2013-10-04]

Affiliated researcher

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Probing concentration-dependent behavior of DNA-binding proteins on a single-molecule level illustrated by Rad51.

Frykholm K, Freitag C, Persson F, Tegenfeldt JO, Granéli A

Anal. Biochem. 443 (2) 261-268 [2013-12-15; online 2013-08-29]

Affiliated researcher

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Bile acids modulate signaling by functional perturbation of plasma membrane domains.

Zhou Y, Maxwell KN, Sezgin E, ..., Lichtenberger LM, Levental I

J Biol Chem 288 (50) 35660-35670 [2013-12-13; online 2013-10-28]

Erdinc Sezgin SciLifeLab Fellow

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Genome-wide analyses implicate 33 loci in heritable dog osteosarcoma, including regulatory variants near CDKN2A/B.

Karlsson EK, Sigurdsson S, Ivansson E, ..., Breen M, Lindblad-Toh K

Genome Biol. 14 (12) R132 [2013-12-12; online 2013-12-12]

Affiliated researcher

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The impact of nandrolone decanoate and growth hormone on biosynthesis of steroids in rats.

Grönbladh A, Johansson J, Kushnir MM, Bergquist J, Hallberg M

Steroids 78 (12-13) 1192-1199 [2013-12-11; online 2013-09-05]

Affiliated researcher

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Microfluidic device for generating a stepwise concentration gradient on a microwell slide for cell analysis.

Weibull E, Matsui S, Sakai M, Andersson Svahn H, Ohashi T

Biomicrofluidics 7 (6) 64115 [2013-12-10; online 2013-12-10]

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Broad-scale phylogenomics provides insights into retrovirus-host evolution.

Hayward A, Grabherr M, Jern P

Proc. Natl. Acad. Sci. U.S.A. 110 (50) 20146-20151 [2013-12-10; online 2013-11-25]

Affiliated researcher

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Signaling in insulin-secreting MIN6 pseudoislets and monolayer cells.

Chowdhury A, Satagopam VP, Manukyan L, ..., Bergquist J, Bergsten P

J. Proteome Res. 12 (12) 5954-5962 [2013-12-06; online 2013-09-30]

Affiliated researcher

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Mass fingerprinting of complex mixtures: protein inference from high-resolution peptide masses and predicted retention times.

Moruz L, Hoopmann MR, Rosenlund M, ..., Moritz RL, Käll L

J. Proteome Res. 12 (12) 5730-5741 [2013-12-06; online 2013-10-11]

Affiliated researcher

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Urinary prognostic biomarkers and classification of IgA nephropathy by high resolution mass spectrometry coupled with liquid chromatography.

Kalantari S, Rutishauser D, Samavat S, ..., Rezaei-Tavirani M, Zubarev RA

PLoS ONE 8 (12) e80830 [2013-12-05; online 2013-12-05]

Affiliated researcher

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S100A4 interacts with p53 in the nucleus and promotes p53 degradation.

Orre LM, Panizza E, Kaminskyy VO, ..., Zhivotovsky B, Lehtiö J

Oncogene 32 (49) 5531-5540 [2013-12-05; online 2013-06-10]

Affiliated researcher

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Accurate detection of subclonal single nucleotide variants in whole genome amplified and pooled cancer samples using HaloPlex target enrichment.

Berglund EC, Lindqvist CM, Hayat S, ..., Lönnerholm G, Syvänen AC

BMC Genomics 14 (-) 856 [2013-12-05; online 2013-12-05]

Affiliated researcher

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Transcription-factor binding and sliding on DNA studied using micro- and macroscopic models.

Marklund EG, Mahmutovic A, Berg OG, ..., Fange D, Elf J

Proc. Natl. Acad. Sci. U.S.A. 110 (49) 19796-19801 [2013-12-03; online 2013-11-12]

Affiliated researcher

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Integrated molecular portrait of non-small cell lung cancers.

Lazar V, Suo C, Orear C, ..., Hansson J, Pawitan Y

BMC Med Genomics 6 (-) 53 [2013-12-03; online 2013-12-03]

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Using Transcriptomics To Improve Butanol Tolerance of Synechocystis sp. Strain PCC 6803

Anfelt J, Hallström B, Nielsen J, Uhlén M, Hudson EP

Appl. Environ. Microbiol. 79 (23) 7419-7427 [2013-12-01; online 2013-09-20]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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A genome-wide association study of atopic dermatitis identifies loci with overlapping effects on asthma and psoriasis.

Weidinger S, Willis-Owen SA, Kamatani Y, ..., Irvine AD, Moffatt MF

Hum. Mol. Genet. 22 (23) 4841-4856 [2013-12-01; online 2013-07-25]

Affiliated researcher

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Understanding the interactions between bacteria in the human gut through metabolic modeling

Shoaie S, Karlsson F, Mardinoglu A, ..., Bordel S, Nielsen J

Sci Rep 3 (1) - [2013-12-00; online 2013-08-28]

Adil Mardinoglu SciLifeLab Fellow

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The links between chromatin spatial organization and biological function.

Rodriguez A, Bjerling P

Biochem. Soc. Trans. 41 (6) 1634-1639 [2013-12-00; online 2013-11-22]

Affiliated researcher

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Selectivity analysis of single binder assays used in plasma protein profiling.

Neiman M, Fredolini C, Johansson H, ..., Nilsson P, Schwenk JM

Proteomics 13 (23-24) 3406-3410 [2013-12-00; online 2013-11-18]

Affiliated researcher

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Protein expansion is primarily due to indels in intrinsically disordered regions.

Light S, Sagit R, Sachenkova O, Ekman D, Elofsson A

Mol. Biol. Evol. 30 (12) 2645-2653 [2013-12-00; online 2013-09-12]

Affiliated researcher

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Post translational modifications in adenovirus type 2.

Bergström Lind S, Artemenko KA, Elfineh L, ..., Bergquist J, Pettersson U

Virology 447 (1-2) 104-111 [2013-12-00; online 2013-09-21]

Affiliated researcher

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Oral bacterial community dynamics in paediatric patients with malignancies in relation to chemotherapy-related oral mucositis: a prospective study.

Ye Y, Carlsson G, Agholme MB, ..., Modéer T, Pütsep K

Clin. Microbiol. Infect. 19 (12) E559-E567 [2013-12-00; online 2013-07-05]

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Olfactory receptor 51E1 as a novel target for diagnosis in somatostatin receptor-negative lung carcinoids.

Giandomenico V, Cui T, Grimelius L, ..., Pelosi G, Tsolakis AV

J. Mol. Endocrinol. 51 (3) 277-286 [2013-12-00; online 2013-11-07]

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Novel candidate genes for 46,XY gonadal dysgenesis identified by a customized 1 M array-CGH platform.

Norling A, Lindén Hirschberg A, Iwarsson E, ..., Wedell A, Barbaro M

Eur J Med Genet 56 (12) 661-668 [2013-12-00; online 2013-09-18]

Affiliated researcher

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In situ mutation detection and visualization of intratumor heterogeneity for cancer research and diagnostics.

Grundberg I, Kiflemariam S, Mignardi M, ..., Botling J, Nilsson M

Oncotarget 4 (12) 2407-2418 [2013-12-00; online 2013-11-28]

Affiliated researcher

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Imaging the in vivo fate of human T cells following transplantation in immunoincompetent mice - implications for clinical cell therapy trials.

Berglund D, Karlsson M, Palanisamy S, ..., Korsgren O, Eriksson O

Transplant immunology 29 (1-4) 105-108 [2013-12-00; online 2013-09-29]

Olof Eriksson SciLifeLab Fellow

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High expression of glycolytic and pigment proteins is associated with worse clinical outcome in stage III melanoma.

Falkenius J, Lundeberg J, Johansson H, ..., Hansson J, Egyhazi Brage S

Melanoma Res. 23 (6) 452-460 [2013-12-00; online 2013-10-17]

Affiliated researcher

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Gene regulation by antisense transcription

Pelechano V, Steinmetz LM

Nat Rev Genet 14 (12) 880-893 [2013-12-00; online 2013-11-12]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Decreased survival in normal karyotype AML with single-nucleotide polymorphisms in genes encoding the AraC metabolizing enzymes cytidine deaminase and 5'-nucleotidase.

Falk IJ, Fyrberg A, Paul E, ..., Gréen H, Lotfi K

Am. J. Hematol. 88 (12) 1001-1006 [2013-12-00; online 2013-09-09]

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Biochemical characterization of stallion prostasomes and comparison to their human counterparts.

Ronquist GK, Ek B, Ronquist G, ..., Carlsson L, Larsson A

Syst Biol Reprod Med 59 (6) 297-303 [2013-12-00; online 2013-08-02]

Affiliated researcher

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Association between circulating endostatin, hypertension duration, and hypertensive target-organ damage.

Carlsson AC, Ruge T, Sundström J, ..., Lind L, Arnlöv J

Hypertension 62 (6) 1146-1151 [2013-12-00; online 2013-09-30]

Affiliated researcher

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Advances in metabolic pathway and strain engineering paving the way for sustainable production of chemical building blocks.

Chen Y, Nielsen J

Curr. Opin. Biotechnol. 24 (6) 965-972 [2013-12-00; online 2013-03-28]

Affiliated researcher

DOI Crossref

Accurate sex identification of ancient human remains using DNA shotgun sequencing

Skoglund P, Storå J, Götherström A, Jakobsson M

Journal of Archaeological Science 40 (12) 4477-4482 [2013-12-00; online 2013-12-00]

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DOI Crossref

Accurate Hotspot Localization by Sampling the Near-Field Pattern of Electronic Devices

Singh P, Deschrijver D, Pissoort D, Dhaene T

IEEE Trans. Electromagn. Compat. 55 (6) 1365-1368 [2013-12-00; online 2013-12-00]

Prashant Singh SciLifeLab Fellow

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A flexible algorithm for calculating pair interactions on SIMD architectures

Páll S, Hess B

Computer Physics Communications 184 (12) 2641-2650 [2013-12-00; online 2013-12-00]

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A balanced sequential design strategy for global surrogate modeling

Singh P, Deschrijver D, Dhaene T

- - (-) - [2013-12-00; online 2013-12-00]

Prashant Singh SciLifeLab Fellow

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Single-cell genomics reveal low recombination frequencies in freshwater bacteria of the SAR11 clade.

Zaremba-Niedzwiedzka K, Viklund J, Zhao W, ..., Stepanauskas R, Andersson SG

Genome Biol. 14 (11) R130 [2013-11-28; online 2013-11-28]

Affiliated researcher

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Testing the reproducibility of multiple displacement amplification on genomes of clonal endosymbiont populations.

Ellegaard KM, Klasson L, Andersson SG

PLoS ONE 8 (11) e82319 [2013-11-27; online 2013-11-27]

Affiliated researcher

DOI Crossref

Thermal Energy Dissipation by SiO2-Coated Plasmonic-Superparamagnetic Nanoparticles in Alternating Magnetic Fields

Sotiriou GA, Visbal-Onufrak MA, Teleki A, ..., Pratsinis SE, Rinaldi C

Chem Mater 25 (22) 4603-4612 [2013-11-26; online 2013-11-07]

Alexandra Teleki SciLifeLab Fellow

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Identification of candidate serum proteins for classifying well-differentiated small intestinal neuroendocrine tumors.

Darmanis S, Cui T, Drobin K, ..., Schwenk JM, Giandomenico V

PLoS ONE 8 (11) e81712 [2013-11-25; online 2013-11-25]

Affiliated researcher

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Snail depletes the tumorigenic potential of glioblastoma.

Savary K, Caglayan D, Caja L, ..., Ferletta M, Moustakas A

Oncogene 32 (47) 5409-5420 [2013-11-21; online 2013-03-25]

Affiliated researcher

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Fastphylo: fast tools for phylogenetics.

Khan MA, Elias I, Sjölund E, ..., Lagergren J, Arvestad L

BMC Bioinformatics 14 (-) 334 [2013-11-20; online 2013-11-20]

Affiliated researcher

PubMed DOI Crossref

Rule-based models of the interplay between genetic and environmental factors in childhood allergy.

Bornelöv S, Sääf A, Melén E, ..., Pershagen G, Komorowski J

PLoS ONE 8 (11) e80080 [2013-11-19; online 2013-11-19]

Affiliated researcher

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Close encounters of the third domain: the emerging genomic view of archaeal diversity and evolution.

Spang A, Martijn J, Saw JH, ..., Guy L, Ettema TJ

Archaea 2013 (-) 202358 [2013-11-19; online 2013-11-19]

Affiliated researcher

PubMed DOI Crossref

Tumor-dependent increase of serum amino acid levels in breast cancer patients has diagnostic potential and correlates with molecular tumor subtypes.

Poschke I, Mao Y, Kiessling R, de Boniface J

J Transl Med 11 (-) 290 [2013-11-16; online 2013-11-16]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

SAMstrt: statistical test for differential expression in single-cell transcriptome with spike-in normalization.

Katayama S, Töhönen V, Linnarsson S, Kere J

Bioinformatics 29 (22) 2943-2945 [2013-11-15; online 2013-08-31]

Affiliated researcher

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In vivo trp scanning of the small multidrug resistance protein EmrE confirms 3D structure models'.

Lloris-Garcerá P, Slusky JS, Seppälä S, ..., Schäfer LV, von Heijne G

J. Mol. Biol. 425 (22) 4642-4651 [2013-11-15; online 2013-08-03]

Affiliated researcher

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Activated Cdc42-associated kinase 1 (Ack1) is required for tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) receptor recruitment to lipid rafts and induction of cell death.

Linderoth E, Pilia G, Mahajan NP, Ferby I

J. Biol. Chem. 288 (46) 32922-32931 [2013-11-15; online 2013-10-01]

Affiliated researcher

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Modulated fluorescence of colloidal quantum dots embedded in a porous alumina membrane.

Xu H, Li L, Manneberg O, ..., Brismar H, Fu Y

J Phys Chem B 117 (45) 14151-14156 [2013-11-14; online 2013-10-31]

Affiliated researcher

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Efficient cellular fractionation improves RNA sequencing analysis of mature and nascent transcripts from human tissues.

Zaghlool A, Ameur A, Nyberg L, ..., Cavelier L, Feuk L

BMC Biotechnol. 13 (-) 99 [2013-11-13; online 2013-11-13]

Affiliated researcher

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Protocol for a collaborative meta-analysis of 5-HTTLPR, stress, and depression.

Culverhouse RC, Bowes L, Breslau N, ..., Bierut LJ, 5-HTTLPR, Stress, and Depression Consortium

BMC Psychiatry 13 (-) 304 [2013-11-12; online 2013-11-12]

Erika Comasco SciLifeLab Fellow

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Mutagenesis and computational modeling of human G-protein-coupled receptor Y2 for neuropeptide Y and peptide YY.

Xu B, Fällmar H, Boukharta L, ..., Aqvist J, Larhammar D

Biochemistry 52 (45) 7987-7998 [2013-11-12; online 2013-10-31]

Affiliated researcher

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ChIP-seq in steatohepatitis and normal liver tissue identifies candidate disease mechanisms related to progression to cancer.

Bysani M, Wallerman O, Bornelöv S, ..., Komorowski J, Wadelius C

BMC Med Genomics 6 (-) 50 [2013-11-08; online 2013-11-08]

Affiliated researcher

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Transforming growth factor-β signalling controls human breast cancer metastasis in a zebrafish xenograft model.

Drabsch Y, He S, Zhang L, Snaar-Jagalska BE, ten Dijke P

Breast Cancer Res. 15 (6) R106 [2013-11-07; online 2013-11-07]

Affiliated researcher

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Inference of the genetic architecture underlying BMI and height with the use of 20,240 sibling pairs.

Hemani G, Yang J, Vinkhuyzen A, ..., Martin NG, Visscher PM

Am. J. Hum. Genet. 93 (5) 865-875 [2013-11-07; online 2013-10-31]

Affiliated researcher

PubMed DOI Crossref

Global analysis of DNA methylation variation in adipose tissue from twins reveals links to disease-associated variants in distal regulatory elements.

Grundberg E, Meduri E, Sandling JK, ..., Bell JT, Deloukas P

Am. J. Hum. Genet. 93 (5) 876-890 [2013-11-07; online 2013-10-31]

Affiliated researcher

PubMed DOI Crossref

Excap: maximization of haplotypic diversity of linked markers.

Kahles A, Sarqume F, Savolainen P, Arvestad L

PLoS ONE 8 (11) e79012 [2013-11-07; online 2013-11-07]

Affiliated researcher

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β-sheet structures and dimer models of the two major tyrocidines, antimicrobial peptides from Bacillus aneurinolyticus.

Munyuki G, Jackson GE, Venter GA, ..., Bhattacharya B, van der Spoel D

Biochemistry 52 (44) 7798-7806 [2013-11-05; online 2013-10-23]

Affiliated researcher

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The vertebrate ancestral repertoire of visual opsins, transducin alpha subunits and oxytocin/vasopressin receptors was established by duplication of their shared genomic region in the two rounds of early vertebrate genome duplications.

Lagman D, Ocampo Daza D, Widmark J, ..., Sundström G, Larhammar D

BMC Evol Biol BMC Evolutionary Biology 13 (-) 238 [2013-11-02; online 2013-11-02]

Affiliated researcher

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Functional Validation of Virtual Screening for Novel Agents with General Anesthetic Action at Ligand-Gated Ion Channels

Heusser SA, Howard RJ, Borghese CM, ..., Carlsson J, Harris RA

Molecular Pharmacology 84 (5) 670-678 [2013-11-01; online 2013-08-15]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

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Comparative and phylogenomic evidence that the alphaproteobacterium HIMB59 is not a member of the oceanic SAR11 clade.

Viklund J, Martijn J, Ettema TJ, Andersson SG

PLoS ONE 8 (11) e78858 [2013-11-01; online 2013-11-01]

Affiliated researcher

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A short C-terminal tail prevents mis-targeting of hydrophobic mitochondrial membrane proteins to the ER.

Reithinger JH, Yim C, Park K, ..., von Heijne G, Kim H

FEBS Lett. 587 (21) 3480-3486 [2013-11-01; online 2013-09-18]

Affiliated researcher

PubMed DOI Crossref

Variants at multiple loci implicated in both innate and adaptive immune responses are associated with Sjögren's syndrome.

Lessard CJ, Li H, Adrianto I, ..., Harley JB, Sivils KL

Nat. Genet. 45 (11) 1284-1292 [2013-11-00; online 2013-10-06]

Affiliated researcher

PubMed DOI Crossref

Towards a unified paradigm for sequence-based identification of fungi.

Kõljalg U, Nilsson RH, Abarenkov K, ..., Weiss M, Larsson KH

Mol. Ecol. 22 (21) 5271-5277 [2013-11-00; online 2013-09-24]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Serum endostatin and risk of mortality in the elderly: findings from 2 community-based cohorts.

Ärnlöv J, Ruge T, Ingelsson E, ..., Sundström J, Lind L

Arterioscler. Thromb. Vasc. Biol. 33 (11) 2689-2695 [2013-11-00; online 2013-09-12]

Affiliated researcher

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Reproducibility of high-throughput mRNA and small RNA sequencing across laboratories

't Hoen PAC, Friedländer MR, Almlöf J, ..., Dermitzakis ET, Lappalainen T

Nat Biotechnol 31 (11) 1015-1022 [2013-11-00; online 2013-09-15]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

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Rapid and deep human proteome analysis by single-dimension shotgun proteomics.

Pirmoradian M, Budamgunta H, Chingin K, ..., Astorga-Wells J, Zubarev RA

Mol. Cell Proteomics 12 (11) 3330-3338 [2013-11-00; online 2013-07-22]

Affiliated researcher

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Putting poly (ADP-ribose) polymerase and other DNA repair inhibitors into clinical practice.

Helleday T

Curr Opin Oncol 25 (6) 609-614 [2013-11-00; online 2013-10-08]

Affiliated researcher

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Proline substitution independently enhances H-2D(b) complex stabilization and TCR recognition of melanoma-associated peptides.

Uchtenhagen H, Abualrous ET, Stahl E, ..., Nygren PÅ, Achour A

Eur. J. Immunol. 43 (11) 3051-3060 [2013-11-00; online 2013-08-30]

Affiliated researcher

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N-terminal peptide sequence repetition influences the kinetics of backbone fragmentation: a manifestation of the Jahn-Teller effect?

Good DM, Yang H, Zubarev RA

J. Am. Soc. Mass Spectrom. 24 (11) 1671-1675 [2013-11-00; online 2013-04-30]

Affiliated researcher

PubMed DOI Crossref

Molecular biomarkers of neurodegeneration.

Höglund K, Salter H

Expert Rev. Mol. Diagn. 13 (8) 845-861 [2013-11-00; online 2013-10-25]

Affiliated researcher

PubMed DOI Crossref

Heritability of objectively assessed daily physical activity and sedentary behavior.

den Hoed M, Brage S, Zhao JH, ..., Wareham NJ, Loos RJ

Am. J. Clin. Nutr. 98 (5) 1317-1325 [2013-11-00; online 2013-09-18]

Affiliated researcher

PubMed DOI Crossref

Discovery and refinement of loci associated with lipid levels.

Willer CJ, Schmidt EM, Sengupta S, ..., Abecasis GR, Global Lipids Genetics Consortium

Nat. Genet. 45 (11) 1274-1283 [2013-11-00; online 2013-10-06]

Affiliated researcher

PubMed DOI Crossref

Deregulation of hyaluronan synthesis, degradation and binding promotes breast cancer.

Heldin P, Basu K, Olofsson B, ..., Kozlova I, Kahata K

J. Biochem. 154 (5) 395-408 [2013-11-00; online 2013-10-03]

Affiliated researcher

PubMed DOI Crossref

Comparative drug pair screening across multiple glioblastoma cell lines reveals novel drug-drug interactions.

Schmidt L, Kling T, Monsefi N, ..., Gerlee P, Nelander S

Neuro-oncology 15 (11) 1469-1478 [2013-11-00; online 2013-10-06]

Affiliated researcher

PubMed DOI Crossref

Common variants associated with plasma triglycerides and risk for coronary artery disease.

Do R, Willer CJ, Schmidt EM, ..., Neale BM, Kathiresan S

Nat. Genet. 45 (11) 1345-1352 [2013-11-00; online 2013-10-06]

Affiliated researcher

PubMed DOI Crossref

Association of genes in the NF-κB pathway with antibody-positive primary Sjögren's syndrome.

Nordmark G, Wang C, Vasaitis L, ..., Syvänen AC, UK Primary Sjögren’s Syndrome Registry

Scand. J. Immunol. 78 (5) 447-454 [2013-11-00; online 2013-08-16]

Affiliated researcher

PubMed DOI Crossref

Antibodies biotinylated using a synthetic Z-domain from protein A provide stringent in situ protein detection.

Andersson S, Konrad A, Ashok N, ..., Hober S, Asplund A

J. Histochem. Cytochem. 61 (11) 773-784 [2013-11-00; online 2013-08-06]

Affiliated researcher

DOI Crossref

Adaptive classification algorithm for EMC‐compliance testing of electronic devices

Singh P, Deschrijver D, Pissoort D, Dhaene T

Electron. lett. 49 (24) 1526-1528 [2013-11-00; online 2013-11-00]

Prashant Singh SciLifeLab Fellow

PubMed DOI Crossref

Serglycin is implicated in the promotion of aggressive phenotype of breast cancer cells.

Korpetinou A, Skandalis SS, Moustakas A, ..., Karamanos NK, Theocharis AD

PLoS ONE 8 (10) e78157 [2013-10-31; online 2013-10-31]

Affiliated researcher

PubMed DOI Crossref

Complementarity between in Silico and Biophysical Screening Approaches in Fragment-Based Lead Discovery against the A2A Adenosine Receptor

Chen D, Ranganathan A, IJzerman AP, Siegal G, Carlsson J

J. Chem. Inf. Model. 53 (10) 2701-2714 [2013-10-28; online 2013-09-18]

Affiliated researcher Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Developmental expression of IL-33 in the mouse brain.

Wicher G, Husic E, Nilsson G, Forsberg-Nilsson K

Neurosci. Lett. 555 (-) 171-176 [2013-10-25; online 2013-09-27]

Affiliated researcher

PubMed DOI Crossref

CGGBP1 phosphorylation constitutes a telomere-protection signal.

Singh U, Maturi V, Jones RE, ..., Baird DM, Westermark B

Cell Cycle 13 (1) 96-105 [2013-10-23; online 2013-10-23]

Affiliated researcher

PubMed DOI Crossref

Direct observation of structurally encoded metal discrimination and ether bond formation in a heterodinuclear metalloprotein.

Griese JJ, Roos K, Cox N, ..., Siegbahn PE, Högbom M

Proc. Natl. Acad. Sci. U.S.A. 110 (43) 17189-17194 [2013-10-22; online 2013-10-07]

Affiliated researcher

PubMed DOI Crossref

Complexation and sequestration of BMP-2 from an ECM mimetic hyaluronan gel for improved bone formation.

Kisiel M, Klar AS, Ventura M, ..., Cool SM, Hilborn J

PLoS ONE 8 (10) e78551 [2013-10-22; online 2013-10-22]

Affiliated researcher

PubMed DOI Crossref

Multiple insecticide resistances in the disease vector Culex p. quinquefasciatus from Western Indian Ocean.

Pocquet N, Milesi P, Makoundou P, ..., Chandre F, Labbé P

PLoS ONE 8 (10) e77855 [2013-10-21; online 2013-10-21]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Quantitative synteny scoring improves homology inference and partitioning of gene families.

Ali RH, Muhammad S, Khan M, Arvestad L

BMC Bioinformatics 14 Suppl 15 (-) S12 [2013-10-15; online 2013-10-15]

Affiliated researcher

PubMed DOI Crossref

Genome-wide probabilistic reconciliation analysis across vertebrates.

Mahmudi O, Sjöstrand J, Sennblad B, Lagergren J

BMC Bioinformatics 14 Suppl 15 (-) S10 [2013-10-15; online 2013-10-15]

Affiliated researcher

PubMed DOI Crossref

Damage-induced DNA replication stalling relies on MAPK-activated protein kinase 2 activity.

Köpper F, Bierwirth C, Schön M, ..., Schön MP, Dobbelstein M

Proc. Natl. Acad. Sci. U.S.A. 110 (42) 16856-16861 [2013-10-15; online 2013-09-30]

Affiliated researcher

PubMed DOI Crossref

Integration of cardiac proteome biology and medicine by a specialized knowledgebase.

Zong NC, Li H, Li H, ..., Hermjakob H, Ping P

Circ. Res. 113 (9) 1043-1053 [2013-10-12; online 2013-08-21]

Affiliated researcher

PubMed DOI Crossref

Chemical fragmentation for massively parallel sequencing library preparation.

Gyarmati P, Song Y, Hällman J, Käller M

J. Biotechnol. 168 (1) 95-100 [2013-10-10; online 2013-08-27]

Affiliated researcher

PubMed DOI Crossref

Thorough investigation of a canine autoinflammatory disease (AID) confirms one main risk locus and suggests a modifier locus for amyloidosis.

Olsson M, Tintle L, Kierczak M, ..., Lindblad-Toh K, Meadows JR

PLoS ONE 8 (10) e75242 [2013-10-09; online 2013-10-09]

Affiliated researcher

PubMed DOI Crossref

Hybrid and nonhybrid lipids exert common effects on membrane raft size and morphology.

Heberle FA, Doktorova M, Goh SL, ..., Katsaras J, Feigenson GW

Journal of the American Chemical Society 135 (40) 14932-14935 [2013-10-09; online 2013-09-26]

DDLS Fellow Milka Doktorova

PubMed DOI Crossref

Quantification of Solvent Contribution to the Stability of Noncovalent Complexes.

Zhang H, Tan T, Hetényi C, van der Spoel D

J. Chem. Theory Comput. 9 (10) 4542-4551 [2013-10-08; online 2013-09-19]

Affiliated researcher

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Nonparametric Bayesian evaluation of differential protein quantification.

Serang O, Cansizoglu AE, Käll L, Steen H, Steen JA

J. Proteome Res. 12 (10) 4556-4565 [2013-10-04; online 2013-09-11]

Affiliated researcher

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Crystal structure of Na+, K(+)-ATPase in the Na(+)-bound state.

Nyblom M, Poulsen H, Gourdon P, ..., Fedosova N, Nissen P

Science 342 (6154) 123-127 [2013-10-04; online 2013-09-19]

Affiliated researcher

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Brain proteomics supports the role of glutamate metabolism and suggests other metabolic alterations in protein l-isoaspartyl methyltransferase (PIMT)-knockout mice.

Yang H, Lowenson JD, Clarke S, Zubarev RA

J. Proteome Res. 12 (10) 4566-4576 [2013-10-04; online 2013-09-10]

Affiliated researcher

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A mutation in the SUV39H2 gene in Labrador Retrievers with hereditary nasal parakeratosis (HNPK) provides insights into the epigenetics of keratinocyte differentiation.

Jagannathan V, Bannoehr J, Plattet P, ..., Roosje P, Leeb T

PLoS Genet 9 (10) e1003848 [2013-10-03; online 2013-10-03]

Affiliated researcher

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Transcription factor ZBED6 affects gene expression, proliferation, and cell death in pancreatic beta cells.

Wang X, Jiang L, Wallerman O, ..., Andersson L, Welsh N

Proc. Natl. Acad. Sci. U.S.A. 110 (40) 15997-16002 [2013-10-01; online 2013-09-16]

Affiliated researcher

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Organellar oligopeptidase (OOP) provides a complementary pathway for targeting peptide degradation in mitochondria and chloroplasts.

Kmiec B, Teixeira PF, Berntsson RP, ..., Stenmark P, Glaser E

Proc. Natl. Acad. Sci. U.S.A. 110 (40) E3761-E3769 [2013-10-01; online 2013-09-16]

Affiliated researcher

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Neuropsychiatric deep brain stimulation for translational neuroimaging.

Höflich A, Savli M, Comasco E, ..., Kasper S, Lanzenberger R

NeuroImage 79 (-) 30-41 [2013-10-01; online 2013-04-28]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Three-way interaction effect of 5-HTTLPR, BDNF Val66Met, and childhood adversity on depression: a replication study.

Comasco E, Åslund C, Oreland L, Nilsson KW

Eur Neuropsychopharmacol 23 (10) 1300-1306 [2013-10-00; online 2013-03-06]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

T-cell responses after haematopoietic stem cell transplantation for aggressive relapsing-remitting multiple sclerosis.

Burman J, Fransson M, Tötterman TH, ..., Mangsbo SM, Loskog AS

Immunology 140 (2) 211-219 [2013-10-00; online 2013-06-01]

Affiliated researcher

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Prostasomes from four different species are able to produce extracellular adenosine triphosphate (ATP).

Ronquist KG, Ek B, Morrell J, ..., Ronquist G, Larsson A

Biochim. Biophys. Acta 1830 (10) 4604-4610 [2013-10-00; online 2013-05-22]

Affiliated researcher

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Profiling of human CD4+ T-cell subsets identifies the TH2-specific noncoding RNA GATA3-AS1.

Zhang H, Nestor CE, Zhao S, ..., Benson M, Wang H

J. Allergy Clin. Immunol. 132 (4) 1005-1008 [2013-10-00; online 2013-07-16]

Antonio Lentini DDLS Fellow

PubMed DOI Crossref

Pleiotropic effects of obesity-susceptibility loci on metabolic traits: a meta-analysis of up to 37,874 individuals.

van Vliet-Ostaptchouk JV, den Hoed M, Luan J, ..., Snieder H, Loos RJ

Diabetologia 56 (10) 2134-2146 [2013-10-00; online 2013-07-05]

Affiliated researcher

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Multiplex detection of antibiotic resistance genes using padlock probes.

Barišić I, Schoenthaler S, Ke R, ..., Noehammer C, Wiesinger-Mayr H

Diagn. Microbiol. Infect. Dis. 77 (2) 118-125 [2013-10-00; online 2013-08-12]

Affiliated researcher

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Mendelian randomization studies do not support a causal role for reduced circulating adiponectin levels in insulin resistance and type 2 diabetes.

Yaghootkar H, Lamina C, Scott RA, ..., Richards JB, Frayling TM

Diabetes 62 (10) 3589-3598 [2013-10-00; online 2013-07-08]

Affiliated researcher

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Heart research advances using database search engines, Human Protein Atlas and the Sydney Heart Bank.

Li A, Estigoy C, Raftery M, ..., Lal S, Dos Remedios CG

Heart Lung Circ 22 (10) 819-826 [2013-10-00; online 2013-07-13]

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Alternative splicing of the chromodomain protein Morf4l1 pre-mRNA has implications on cell differentiation in the developing chicken retina.

Boije H, Ring H, Shirazi Fard S, ..., Nilsson M, Hallböök F

J. Mol. Neurosci. 51 (2) 615-628 [2013-10-00; online 2013-06-04]

Affiliated researcher

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Adipocytokines levels at delivery, functional variation of TFAP2β, and maternal and neonatal anthropometric parameters.

Comasco E, Iliadis SI, Larsson A, ..., Sundström-Poromaa I, Skalkidou A

Obesity (Silver Spring) 21 (10) 2130-2137 [2013-10-00; online 2013-05-29]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

A comparison of reduced coordinate sets for describing protein structure.

Hinsen K, Hu S, Kneller GR, Niemi AJ

J Chem Phys 139 (12) 124115 [2013-09-28; online 2013-10-05]

Affiliated researcher

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FHOD1, a formin upregulated in epithelial-mesenchymal transition, participates in cancer cell migration and invasion.

Gardberg M, Kaipio K, Lehtinen L, ..., Koivisto M, Carpén O

PLoS ONE 8 (9) e74923 [2013-09-26; online 2013-09-26]

Affiliated researcher

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Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia.

Nordlund J, Bäcklin CL, Wahlberg P, ..., Lönnerholm G, Syvänen AC

Genome Biol. 14 (9) r105 [2013-09-24; online 2013-09-24]

Affiliated researcher

PubMed DOI Crossref

Peak Finder Metaserver - a novel application for finding peaks in ChIP-seq data.

Kruczyk M, Umer HM, Enroth S, Komorowski J

BMC Bioinformatics 14 (-) 280 [2013-09-23; online 2013-09-23]

Affiliated researcher

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A metagenomics transect into the deepest point of the Baltic Sea reveals clear stratification of microbial functional capacities.

Thureborn P, Lundin D, Plathan J, ..., Sjöberg BM, Sjöling S

PLoS ONE 8 (9) e74983 [2013-09-23; online 2013-09-23]

Affiliated researcher

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Ebsulfur is a benzisothiazolone cytocidal inhibitor targeting the trypanothione reductase of Trypanosoma brucei.

Lu J, Vodnala SK, Gustavsson AL, ..., Rottenberg ME, Holmgren A

J. Biol. Chem. 288 (38) 27456-27468 [2013-09-20; online 2013-07-29]

Affiliated researcher

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E2F-7 couples DNA damage-dependent transcription with the DNA repair process.

Zalmas LP, Coutts AS, Helleday T, La Thangue NB

Cell Cycle 12 (18) 3037-3051 [2013-09-15; online 2013-08-20]

Affiliated researcher

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Blood plasma IgG Fc glycans are significantly altered in Alzheimer's disease and progressive mild cognitive impairment.

Lundström SL, Yang H, Lyutvinskiy Y, ..., Soininen H, Zubarev RA

J. Alzheimers Dis. 38 (3) 567-579 [2013-09-14; online 2013-09-14]

Affiliated researcher

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Genomic Identification of Founding Haplotypes Reveals the History of the Selfing Species Capsella rubella

Brandvain Y, Slotte T, Hazzouri KM, Wright SI, Coop G

PLoS Genet 9 (9) e1003754 [2013-09-12; online 2013-09-12]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Efficient TGFβ-induced epithelial-mesenchymal transition depends on hyaluronan synthase HAS2.

Porsch H, Bernert B, Mehić M, ..., Heldin CH, Heldin P

Oncogene 32 (37) 4355-4365 [2013-09-12; online 2012-10-29]

Affiliated researcher

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Shotgun brain proteomics reveals early molecular signature in presymptomatic mouse model of Alzheimer's disease.

Yang H, Wittnam JL, Zubarev RA, Bayer TA

J. Alzheimers Dis. 37 (2) 297-308 [2013-09-11; online 2013-09-11]

Affiliated researcher

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Association dynamics and linear and nonlinear optical properties of an N-acetylaladanamide probe in a POPC membrane.

Murugan NA, Apostolov R, Rinkevicius Z, ..., Lindahl E, Ågren H

J. Am. Chem. Soc. 135 (36) 13590-13597 [2013-09-11; online 2013-08-29]

Affiliated researcher

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Spatial distribution of DARPP-32 in dendritic spines.

Blom H, Rönnlund D, Scott L, ..., Aperia A, Brismar H

PLoS ONE 8 (9) e75155 [2013-09-10; online 2013-09-10]

Affiliated researcher

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Gray matter is targeted in first-attack multiple sclerosis.

Schutzer SE, Angel TE, Liu T, ..., Smith RD, Coyle PK

PLoS ONE 8 (9) e66117 [2013-09-10; online 2013-09-10]

Affiliated researcher

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A tosyl-activated magnetic bead cellulose as solid support for sensitive protein detection.

Yan J, Horák D, Lenfeld J, Hammond M, Kamali-Moghaddam M

J. Biotechnol. 167 (3) 235-240 [2013-09-10; online 2013-06-27]

Affiliated researcher

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Bisphosphonate-linked hyaluronic acid hydrogel sequesters and enzymatically releases active bone morphogenetic protein-2 for induction of osteogenic differentiation.

Hulsart-Billström G, Yuen PK, Marsell R, ..., Larsson S, Ossipov D

Biomacromolecules 14 (9) 3055-3063 [2013-09-09; online 2013-08-28]

Affiliated researcher

PubMed DOI Crossref

Pre-Columbian origins of Native American dog breeds, with only limited replacement by European dogs, confirmed by mtDNA analysis.

van Asch B, Zhang AB, Oskarsson MC, ..., Amorim A, Savolainen P

Proc. Biol. Sci. 280 (1766) 20131142 [2013-09-07; online 2013-09-07]

Affiliated researcher

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Quantitative proteomics profiling of primary lung adenocarcinoma tumors reveals functional perturbations in tumor metabolism.

Pernemalm M, De Petris L, Branca RM, ..., Lewensohn R, Lehtiö J

J. Proteome Res. 12 (9) 3934-3943 [2013-09-06; online 2013-08-13]

Affiliated researcher

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MicroRNA-24 suppression of N-deacetylase/N-sulfotransferase-1 (NDST1) reduces endothelial cell responsiveness to vascular endothelial growth factor A (VEGFA).

Kasza Z, Fredlund Fuchs P, Tamm C, ..., Kjellén L, Kreuger J

J. Biol. Chem. 288 (36) 25956-25963 [2013-09-06; online 2013-07-24]

Affiliated researcher

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Transcriptional response to stress in the dynamic chromatin environment of cycling and mitotic cells.

Vihervaara A, Sergelius C, Vasara J, ..., Roos-Mattjus P, Sistonen L

Proc. Natl. Acad. Sci. U.S.A. 110 (36) E3388-E3397 [2013-09-03; online 2013-08-19]

Anniina Vihervaara SciLifeLab Fellow

PubMed DOI Crossref

Population structure of Wolbachia and cytoplasmic introgression in a complex of mosquito species.

Dumas E, Atyame CM, Milesi P, ..., Weill M, Duron O

BMC Evol Biol BMC Evolutionary Biology 13 (-) 181 [2013-09-03; online 2013-09-03]

Pascal Milesi SciLifeLab Fellow

PubMed DOI Crossref

Cotranslational folding of membrane proteins probed by arrest-peptide-mediated force measurements.

Cymer F, von Heijne G

Proc. Natl. Acad. Sci. U.S.A. 110 (36) 14640-14645 [2013-09-03; online 2013-08-19]

Affiliated researcher

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Transcriptome and genome sequencing uncovers functional variation in humans

Lappalainen T, Sammeth M, Friedländer MR, ..., Estivill X, Dermitzakis ET

Nature 501 (7468) 506-511 [2013-09-00; online 2013-09-15]

Affiliated researcher Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Role of individual MARK isoforms in phosphorylation of tau at Ser²⁶² in Alzheimer's disease.

Gu GJ, Lund H, Wu D, ..., Sunnemark D, Kamali-Moghaddam M

Neuromolecular Med. 15 (3) 458-469 [2013-09-00; online 2013-05-12]

Affiliated researcher

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Progesterone receptor negativity is an independent risk factor for relapse in patients with early stage endometrioid endometrial adenocarcinoma.

Huvila J, Talve L, Carpén O, ..., Grénman S, Auranen A

Gynecol. Oncol. 130 (3) 463-469 [2013-09-00; online 2013-06-15]

Affiliated researcher

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Perceived stress at work is associated with attenuated DHEA-S response during acute psychosocial stress.

Lennartsson AK, Theorell T, Kushnir MM, Bergquist J, Jonsdottir IH

Psychoneuroendocrinology 38 (9) 1650-1657 [2013-09-00; online 2013-02-18]

Affiliated researcher

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Oxymorphone active uptake at the blood-brain barrier and population modeling of its pharmacokinetic-pharmacodynamic relationship.

Sadiq MW, Boström E, Keizer R, Björkman S, Hammarlund-Udenaes M

J Pharm Sci 102 (9) 3320-3331 [2013-09-00; online 2013-03-05]

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Ouabain protects against Shiga toxin-triggered apoptosis by reversing the imbalance between Bax and Bcl-xL.

Burlaka I, Liu XL, Rebetz J, ..., Karpman D, Aperia A

J. Am. Soc. Nephrol. 24 (9) 1413-1423 [2013-09-00; online 2013-06-06]

Affiliated researcher

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One kilometer (1 km) electric solar wind sail tether produced automatically.

Seppänen H, Rauhala T, Kiprich S, ..., Janhunen P, Hæggström E

Rev Sci Instrum 84 (9) 095102 [2013-09-00; online 2013-10-05]

Affiliated researcher

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NOD2-mediated innate immune signaling regulates the eicosanoids in atherosclerosis.

Liu HQ, Zhang XY, Edfeldt K, ..., Hansson GK, Yan ZQ

Arterioscler. Thromb. Vasc. Biol. 33 (9) 2193-2201 [2013-09-00; online 2013-07-18]

Affiliated researcher

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Multilocus genetic risk scores for coronary heart disease prediction.

Ganna A, Magnusson PK, Pedersen NL, ..., Hamsten A, Ingelsson E

Arterioscler. Thromb. Vasc. Biol. 33 (9) 2267-2272 [2013-09-00; online 2013-05-16]

Affiliated researcher

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Ipilimumab treatment results in an early decrease in the frequency of circulating granulocytic myeloid-derived suppressor cells as well as their Arginase1 production.

Pico de Coaña Y, Poschke I, Gentilcore G, ..., Masucci GV, Kiessling R

Cancer Immunol Res 1 (3) 158-162 [2013-09-00; online 2013-08-02]

SciLifeLab Fellow Yumeng Mao

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Investigation of the three-dimensional orientation of mineralized collagen fibrils in human lamellar bone using synchrotron X-ray phase nano-tomography.

Varga P, Pacureanu A, Langer M, ..., Raum K, Peyrin F

Acta Biomater 9 (9) 8118-8127 [2013-09-00; online 2013-05-23]

Affiliated researcher

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In situ sequencing for RNA analysis in preserved tissue and cells.

Ke R, Mignardi M, Pacureanu A, ..., Wählby C, Nilsson M

Nat. Methods 10 (9) 857-860 [2013-09-00; online 2013-07-14]

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Hira-Dependent Histone H3.3 Deposition Facilitates PRC2 Recruitment at Developmental Loci in ES Cells

Banaszynski LA, Wen D, Dewell S, ..., Zheng D, Allis CD

Cell 155 (1) 107-120 [2013-09-00; online 2013-09-00]

SciLifeLab Fellow Simon Elsässer

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Global DNA hypermethylation is associated with high serum levels of persistent organic pollutants in an elderly population.

Lind L, Penell J, Luttropp K, ..., Ingelsson E, Lind PM

Environ Int 59 (-) 456-461 [2013-09-00; online 2013-08-09]

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Genome-wide association study identifies ephrin type A receptors implicated in paclitaxel induced peripheral sensory neuropathy.

Leandro-García LJ, Inglada-Pérez L, Pita G, ..., Gréen H, Rodríguez-Antona C

J. Med. Genet. 50 (9) 599-605 [2013-09-00; online 2013-06-17]

Affiliated researcher

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Genome-scale modeling of human metabolism - a systems biology approach

Mardinoglu A, Gatto F, Nielsen J

Biotechnology Journal 8 (9) 985-996 [2013-09-00; online 2013-04-24]

Adil Mardinoglu SciLifeLab Fellow

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Genes identified in Asian SLE GWASs are also associated with SLE in Caucasian populations.

Wang C, Ahlford A, Järvinen TM, ..., Syvänen AC, Sandling JK

Eur. J. Hum. Genet. 21 (9) 994-999 [2013-09-00; online 2012-12-19]

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Autoantibody profiling in multiple sclerosis using arrays of human protein fragments.

Ayoglu B, Häggmark A, Khademi M, ..., Schwenk JM, Nilsson P

Mol. Cell Proteomics 12 (9) 2657-2672 [2013-09-00; online 2013-06-03]

Affiliated researcher

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ABCB1 gene polymorphisms are associated with suicide in forensic autopsies.

Boiso Moreno S, Zackrisson AL, Jakobsen Falk I, ..., Hägg S, Gréen H

Pharmacogenet. Genomics 23 (9) 463-469 [2013-09-00; online 2013-07-04]

Affiliated researcher

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A follow-up linkage study of Finnish pre-eclampsia families identifies a new fetal susceptibility locus on chromosome 18.

Majander KK, Villa PM, Kivinen K, Kere J, Laivuori H

Eur. J. Hum. Genet. 21 (9) 1024-1026 [2013-09-00; online 2013-02-06]

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A Convenient Microwave-Assisted Propylphosphonic Anhydride (T3P®) Mediated One-Pot Pyrazolone Synthesis

Desroses M, Jacques-Cordonnier MC, Llona-Minguez S, ..., Helleday T, Scobie M

Eur. J. Org. Chem. 2013 (26) 5879-5885 [2013-09-00; online 2013-07-29]

Affiliated researcher

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The role of heat stress on the age related protein carbonylation.

Bozaykut P, Sozen E, Kaga E, ..., Bergquist J, Karademir B

J Proteomics 89 (-) 238-254 [2013-08-26; online 2013-06-26]

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Lypd6 enhances Wnt/β-catenin signaling by promoting Lrp6 phosphorylation in raft plasma membrane domains.

Özhan G, Sezgin E, Wehner D, ..., Schwille P, Weidinger G

Dev. Cell 26 (4) 331-345 [2013-08-26; online 2013-08-31]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

DNA repair genes are selectively mutated in diffuse large B cell lymphomas.

de Miranda NF, Peng R, Georgiou K, ..., Kipling D, Pan-Hammarström Q

J. Exp. Med. 210 (9) 1729-1742 [2013-08-26; online 2013-08-19]

Affiliated researcher

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Structure-guided design of novel thiazolidine inhibitors of O-acetyl serine sulfhydrylase from Mycobacterium tuberculosis.

Poyraz O, Jeankumar VU, Saxena S, ..., Sriram D, Schneider G

J. Med. Chem. 56 (16) 6457-6466 [2013-08-22; online 2013-08-07]

Affiliated researcher

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Causal and synthetic associations of variants in the SERPINA gene cluster with alpha1-antitrypsin serum levels.

Thun GA, Imboden M, Ferrarotti I, ..., Luisetti M, Probst-Hensch NM

PLoS Genet 9 (8) e1003585 [2013-08-22; online 2013-08-22]

Affiliated researcher

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Optimized nonlinear gradients for reversed-phase liquid chromatography in shotgun proteomics.

Moruz L, Pichler P, Stranzl T, Mechtler K, Käll L

Anal. Chem. 85 (16) 7777-7785 [2013-08-20; online 2013-07-24]

Affiliated researcher

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Ontogeny, distribution and potential roles of 5-hydroxymethylcytosine in human liver function.

Ivanov M, Kals M, Kacevska M, ..., Milani L, Ingelman-Sundberg M

Genome Biol. 14 (8) R83 [2013-08-19; online 2013-08-19]

Affiliated researcher

PubMed DOI Crossref

Automated serial extraction of DNA and RNA from biobanked tissue specimens.

Mathot L, Wallin M, Sjöblom T

BMC Biotechnol. 13 (-) 66 [2013-08-19; online 2013-08-19]

Affiliated researcher

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Transcription factor binding in human cells occurs in dense clusters formed around cohesin anchor sites.

Yan J, Enge M, Whitington T, ..., Taipale M, Taipale J

Cell 154 (4) 801-813 [2013-08-15; online 2013-08-21]

Affiliated researcher

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Evaluation of injectable constructs for bone repair with a subperiosteal cranial model in the rat.

Kisiel M, Klar AS, Martino MM, Ventura M, Hilborn J

PLoS ONE 8 (8) e71683 [2013-08-13; online 2013-08-13]

Affiliated researcher

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A novel method for rapid hybridization of DNA to a solid support.

Pettersson E, Ahmadian A, Ståhl PL

PLoS ONE 8 (8) e70504 [2013-08-12; online 2013-08-12]

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PubMed DOI Crossref

Quantitative analysis of SecYEG-mediated insertion of transmembrane α-helices into the bacterial inner membrane.

Ojemalm K, Botelho SC, Stüdle C, von Heijne G

J. Mol. Biol. 425 (15) 2813-2822 [2013-08-09; online 2013-05-07]

Affiliated researcher

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Meta-analysis of gene-level associations for rare variants based on single-variant statistics.

Hu YJ, Berndt SI, Gustafsson S, ..., Ingelsson E, Lin DY

Am. J. Hum. Genet. 93 (2) 236-248 [2013-08-08; online 2013-07-25]

Affiliated researcher

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Increased replication initiation and conflicts with transcription underlie Cyclin E-induced replication stress.

Jones RM, Mortusewicz O, Afzal I, ..., Helleday T, Petermann E

Oncogene 32 (32) 3744-3753 [2013-08-08; online 2012-09-03]

Affiliated researcher

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Analysis of protein interactions in situ by proximity ligation assays.

Koos B, Andersson L, Clausson CM, ..., Cane G, Söderberg O

Curr. Top. Microbiol. Immunol. 377 (-) 111-126 [2013-08-08; online 2013-08-08]

Affiliated researcher

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Stabilization of the GluCl ligand-gated ion channel in the presence and absence of ivermectin.

Yoluk O, Brömstrup T, Bertaccini EJ, Trudell JR, Lindahl E

Biophys. J. 105 (3) 640-647 [2013-08-06; online 2013-08-13]

Affiliated researcher

DOI Crossref

Seasonality and environmental control of freshwater SAR11 (LD12) in a temperate lake (Lake Erken, Sweden)

Heinrich F, Eiler A, Bertilsson S

Aquat. Microb. Ecol. 70 (1) 33-44 [2013-08-06; online 2013-08-06]

Affiliated researcher

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Inhibition versus potentiation of ligand-gated ion channels can be altered by a single mutation that moves ligands between intra- and intersubunit sites.

Brömstrup T, Howard RJ, Trudell JR, Harris RA, Lindahl E

Structure 21 (8) 1307-1316 [2013-08-06; online 2013-07-25]

Affiliated researcher

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Prevalence and sensitization of atopic allergy and coeliac disease in the Northern Sweden Population Health Study.

Enroth S, Dahlbom I, Hansson T, Johansson Å, Gyllensten U

Int J Circumpolar Health 72 (-) - [2013-08-05; online 2013-08-05]

Affiliated researcher

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Improved production of membrane proteins in Escherichia coli by selective codon substitutions.

Nørholm MH, Toddo S, Virkki MT, ..., von Heijne G, Daley DO

FEBS Lett. 587 (15) 2352-2358 [2013-08-02; online 2013-06-12]

Affiliated researcher

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Specific interactions between Smad proteins and AP-1 components determine TGFβ-induced breast cancer cell invasion.

Sundqvist A, Zieba A, Vasilaki E, ..., Ten Dijke P, van Dam H

Oncogene 32 (31) 3606-3615 [2013-08-01; online 2012-08-27]

Affiliated researcher

PubMed DOI Crossref

Tat-PTD-modified oncolytic adenovirus driven by the SCG3 promoter and ASH1 enhancer for neuroblastoma therapy.

Jin C, Yu D, Čančer M, ..., Leja J, Essand M

Hum. Gene Ther. 24 (8) 766-775 [2013-08-00; online 2013-07-31]

Affiliated researcher

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Synergistic interactions between camptothecin and EGFR or RAC1 inhibitors and between imatinib and Notch signaling or RAC1 inhibitors in glioblastoma cell lines.

Sooman L, Ekman S, Andersson C, ..., Lennartsson J, Gullbo J

Cancer Chemother. Pharmacol. 72 (2) 329-340 [2013-08-00; online 2013-06-05]

Affiliated researcher

PubMed DOI Crossref

Single molecule methods with applications in living cells.

Persson F, Barkefors I, Elf J

Curr. Opin. Biotechnol. 24 (4) 737-744 [2013-08-00; online 2013-04-08]

Affiliated researcher

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Proteotoxic Stress Induces a Cell-Cycle Arrest by Stimulating Lon to Degrade the Replication Initiator DnaA

Jonas K, Liu J, Chien P, Laub MT

Cell 154 (3) 623-636 [2013-08-00; online 2013-08-00]

Kristina Jonas SciLifeLab Fellow

PubMed DOI Crossref

Polyadenylation site–induced decay of upstream transcripts enforces promoter directionality

Ntini E, Järvelin AI, Bornholdt J, ..., Sandelin A, Jensen TH

Nat Struct Mol Biol 20 (8) 923-928 [2013-08-00; online 2013-07-14]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Phylogenomics of the Intracellular Parasite Mikrocytos mackini Reveals Evidence for a Mitosome in Rhizaria

Burki F, Corradi N, Sierra R, ..., Abbott CL, Keeling PJ

Current Biology 23 (16) 1541-1547 [2013-08-00; online 2013-08-00]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

MicroRNA expression profiling in blood from fragile X-associated tremor/ataxia syndrome patients

Alvarez-Mora MI, Rodriguez-Revenga L, Madrigal I, ..., Estivill X, Milà M

- 12 (6) 595-603 [2013-08-00; online 2013-07-24]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Measuring Arabidopsis chromatin accessibility using DNase I-polymerase chain reaction and DNase I-chip assays.

Shu H, Gruissem W, Hennig L

Plant Physiol. 162 (4) 1794-1801 [2013-08-00; online 2013-06-05]

Affiliated researcher

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Injection and adhesion palatoplasty: a preliminary study in a canine model.

Martínez-Álvarez C, González-Meli B, Berenguer-Froehner B, ..., Casado-Gómez I, Martínez-Sanz E

J. Surg. Res. 183 (2) 654-662 [2013-08-00; online 2013-03-22]

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In vivo imaging of the glucagonlike peptide 1 receptor in the pancreas with 68Ga-labeled DO3A-exendin-4.

Selvaraju RK, Velikyan I, Johansson L, ..., Korsgren O, Eriksson O

Journal of nuclear medicine : official publication, Society of Nuclear Medicine 54 (8) 1458-1463 [2013-08-00; online 2013-06-12]

Olof Eriksson SciLifeLab Fellow

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In silico instrumental response correction improves precision of label-free proteomics and accuracy of proteomics-based predictive models.

Lyutvinskiy Y, Yang H, Rutishauser D, Zubarev RA

Mol. Cell Proteomics 12 (8) 2324-2331 [2013-08-00; online 2013-04-15]

Affiliated researcher

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Frizzled6 deficiency disrupts the differentiation process of nail development.

Cui CY, Klar J, Georgii-Heming P, ..., Schlessinger D, Dahl N

J. Invest. Dermatol. 133 (8) 1990-1997 [2013-08-00; online 2013-02-25]

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Expression of chondroitin/dermatan sulfate glycosyltransferases during early zebrafish development.

Filipek-Górniok B, Holmborn K, Haitina T, ..., Kreuger J, Ledin J

Dev. Dyn. 242 (8) 964-975 [2013-08-00; online 2013-06-18]

Affiliated researcher

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Exploring the genetic landscape in chronic lymphocytic leukemia using high-resolution technologies.

Gunnarsson R, Mansouri L, Rosenquist R

Leuk. Lymphoma 54 (8) 1583-1590 [2013-08-00; online 2013-02-28]

Affiliated researcher

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Design of a highly selective and potent class of non-planar estrogen receptor β agonists.

Sundén H, Ma JN, Hansen LK, ..., Burstein ES, Olsson R

ChemMedChem 8 (8) 1283-1294 [2013-08-00; online 2013-06-19]

Affiliated researcher

PubMed DOI Crossref

Depth-discrete profiles of bacterial communities reveal pronounced spatio-temporal dynamics related to lake stratification.

Garcia SL, Salka I, Grossart HP, Warnecke F

Environ Microbiol Rep 5 (4) 549-555 [2013-08-00; online 2013-03-18]

Sarahi Garcia SciLifeLab Fellow

PubMed DOI Crossref

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis.

Haas BJ, Papanicolaou A, Yassour M, ..., Friedman N, Regev A

Nat Protoc 8 (8) 1494-1512 [2013-08-00; online 2013-07-11]

Affiliated researcher

DOI Crossref

Cyclooxygenase-2

Mao Y, Poschke I, Kiessling R

Oncoimmunology 2 (8) e25157 [2013-08-00; online 2014-10-27]

SciLifeLab Fellow Yumeng Mao

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Comparison of uptake mechanisms for anthracyclines in human leukemic cells.

Karim H, Bogason A, Bhuiyan H, ..., Lafolie P, Vitols S

Curr Drug Deliv 10 (4) 404-412 [2013-08-00; online 2012-10-16]

Affiliated researcher

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Antibody-based profiling of cerebrospinal fluid within multiple sclerosis.

Häggmark A, Byström S, Ayoglu B, ..., Schwenk JM, Nilsson P

Proteomics 13 (15) 2256-2267 [2013-08-00; online 2013-06-25]

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A novel intellectual disability syndrome caused by GPI anchor deficiency due to homozygous mutations in PIGT.

Kvarnung M, Nilsson D, Lindstrand A, ..., Nordenskjöld M, Nordgren A

J. Med. Genet. 50 (8) 521-528 [2013-08-00; online 2013-05-01]

Affiliated researcher

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Searching for synergies: matrix algebraic approaches for efficient pair screening.

Gerlee P, Schmidt L, Monsefi N, ..., Jörnsten R, Nelander S

PLoS ONE 8 (7) e68598 [2013-07-25; online 2013-07-25]

Affiliated researcher

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Gene × physical activity interactions in obesity: combined analysis of 111,421 individuals of European ancestry.

Ahmad S, Rukh G, Varga TV, ..., Orho-Melander M, Franks PW

PLoS Genet 9 (7) e1003607 [2013-07-25; online 2013-07-25]

Affiliated researcher

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Retinoic acid receptor alpha is associated with tamoxifen resistance in breast cancer.

Johansson HJ, Sanchez BC, Mundt F, ..., Linderholm BK, Lehtiö J

Nat Commun 4 (-) 2175 [2013-07-23; online 2013-07-23]

Affiliated researcher

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PCR-induced transitions are the major source of error in cleaned ultra-deep pyrosequencing data.

Brodin J, Mild M, Hedskog C, ..., Andersson B, Albert J

PLoS ONE 8 (7) e70388 [2013-07-23; online 2013-07-23]

Affiliated researcher

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Modeling catalytic promiscuity in the alkaline phosphatase superfamily.

Duarte F, Amrein BA, Kamerlin SC

Phys Chem Chem Phys 15 (27) 11160-11177 [2013-07-21; online 2013-06-03]

Affiliated researcher

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Characterization of the effect of a novel γ-secretase modulator on Aβ: a clinically translatable model.

Portelius E, Appelkvist P, Stromberg K, Hoglund K

Curr. Pharm. Des. 20 (15) 2484-2490 [2013-07-19; online 2013-07-19]

Affiliated researcher

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Arabidopsis MSI1 connects LHP1 to PRC2 complexes.

Derkacheva M, Steinbach Y, Wildhaber T, ..., Gruissem W, Hennig L

EMBO J. 32 (14) 2073-2085 [2013-07-17; online 2013-06-18]

Affiliated researcher

PubMed DOI Crossref

Improving precision of proximity ligation assay by amplified single molecule detection.

Ke R, Nong RY, Fredriksson S, Landegren U, Nilsson M

PLoS ONE 8 (7) e69813 [2013-07-16; online 2013-07-16]

Affiliated researcher

PubMed DOI Crossref

PconsD: ultra rapid, accurate model quality assessment for protein structure prediction.

Skwark MJ, Elofsson A

Bioinformatics 29 (14) 1817-1818 [2013-07-15; online 2013-05-14]

Affiliated researcher

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PconsC: combination of direct information methods and alignments improves contact prediction.

Skwark MJ, Abdel-Rehim A, Elofsson A

Bioinformatics 29 (14) 1815-1816 [2013-07-15; online 2013-05-08]

Affiliated researcher

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PHAISTOS: a framework for Markov chain Monte Carlo simulation and inference of protein structure.

Boomsma W, Frellsen J, Harder T, ..., Ferkinghoff-Borg J, Hamelryck T

J Comput Chem 34 (19) 1697-1705 [2013-07-15; online 2013-04-26]

Affiliated researcher

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Lessons from functional analysis of genome-wide association studies.

Sur I, Tuupanen S, Whitington T, Aaltonen LA, Taipale J

Cancer Res. 73 (14) 4180-4184 [2013-07-15; online 2013-07-05]

Affiliated researcher

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Structure-based Discovery of Antagonists of Nuclear Receptor LRH-1

Benod C, Carlsson J, Uthayaruban R, ..., Sablin EP, Fletterick RJ

J. Biol. Chem. 288 (27) 19830-19844 [2013-07-05; online 2013-05-10]

Jens Carlsson SciLifeLab Fellow

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Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse.

Orlando L, Ginolhac A, Zhang G, ..., Wang J, Willerslev E

Nature 499 (7456) 74-78 [2013-07-04; online 2013-06-26]

Affiliated researcher

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Podocalyxin-like protein expression in primary colorectal cancer and synchronous lymph node metastases.

Larsson AH, Nodin B, Syk I, ..., Eberhard J, Jirström K

Diagn Pathol 8 (-) 109 [2013-07-02; online 2013-07-02]

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Melanoma-educated CD14+ cells acquire a myeloid-derived suppressor cell phenotype through COX-2-dependent mechanisms.

Mao Y, Poschke I, Wennerberg E, ..., Lundqvist A, Kiessling R

Cancer Res. 73 (13) 3877-3887 [2013-07-01; online 2013-04-30]

SciLifeLab Fellow Yumeng Mao

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Upregulation of a small vault RNA (svtRNA2-1a) is an early event in Parkinson disease and induces neuronal dysfunction.

Miñones-Moyano E, Friedländer MR, Pallares J, ..., Estivill X, Martí E

RNA Biol 10 (7) 1093-1106 [2013-07-00; online 2013-05-01]

Marc Friedländer SciLifeLab Fellow

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Tuning the density profile of surface-grafted hyaluronan and the effect of counter-ions.

Berts I, Fragneto G, Hilborn J, Rennie AR

Eur Phys J E Soft Matter 36 (7) 70 [2013-07-00; online 2013-07-16]

Affiliated researcher

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Transcriptome analysis reveals upregulation of bitter taste receptors in severe asthmatics.

Orsmark-Pietras C, James A, Konradsen JR, ..., Hedlin G, Melén E

Eur. Respir. J. 42 (1) 65-78 [2013-07-00; online 2012-12-06]

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The Capsella rubella genome and the genomic consequences of rapid mating system evolution

Slotte T, Hazzouri KM, Ågren JA, ..., Weigel D, Wright SI

Nat Genet 45 (7) 831-835 [2013-07-00; online 2013-06-09]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Tau-tubulin kinase 1 expression, phosphorylation and co-localization with phospho-Ser422 tau in the Alzheimer's disease brain.

Lund H, Cowburn RF, Gustafsson E, ..., Malinowsky D, Sunnemark D

Brain Pathol. 23 (4) 378-389 [2013-07-00; online 2012-11-20]

Affiliated researcher

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Principles of transcriptome analysis and gene expression quantification: an RNA-seq tutorial.

Wolf JB

Mol Ecol Resour 13 (4) 559-572 [2013-07-00; online 2013-04-27]

Affiliated researcher

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Molecular profiling reveals prognostically significant subtypes of canine lymphoma.

Frantz AM, Sarver AL, Ito D, ..., O'Brien TD, Modiano JF

Vet. Pathol. 50 (4) 693-703 [2013-07-00; online 2012-11-02]

Affiliated researcher

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Massive functional mapping of a 5'-UTR by saturation mutagenesis, phenotypic sorting and deep sequencing.

Holmqvist E, Reimegård J, Wagner EG

Nucleic Acids Res. 41 (12) e122 [2013-07-00; online 2013-04-22]

Affiliated researcher

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MGclus: network clustering employing shared neighbors.

Frings O, Alexeyenko A, Sonnhammer EL

Mol Biosyst 9 (7) 1670-1675 [2013-07-00; online 2013-02-11]

Affiliated researcher

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Influence of catechol-O-methyltransferase Val158Met polymorphism on startle response in the presence of high estradiol levels.

Comasco E, Hellgren C, Sundström-Poromaa I

Eur Neuropsychopharmacol 23 (7) 629-635 [2013-07-00; online 2012-07-23]

Erika Comasco SciLifeLab Fellow

DOI Crossref

Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for analysis of environmental sequencing data

Bengtsson-Palme J, Ryberg M, Hartmann M, ..., Veldre V, Nilsson RH

Methods Ecol Evol - (-) n/a-n/a [2013-07-00; online 2013-07-19]

DDLS Fellow Johan Bengtsson-Palme

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Homologous recombination mediates cellular resistance and fraction size sensitivity to radiation therapy.

Somaiah N, Yarnold J, Lagerqvist A, Rothkamm K, Helleday T

Radiother Oncol 108 (1) 155-161 [2013-07-00; online 2013-06-05]

Affiliated researcher

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Genetic dissection of the pre-eclampsia susceptibility locus on chromosome 2q22 reveals shared novel risk factors for cardiovascular disease.

Johnson MP, Brennecke SP, East CE, ..., Blangero J, Moses EK

Mol. Hum. Reprod. 19 (7) 423-437 [2013-07-00; online 2013-02-18]

Affiliated researcher

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Defining, comparing, and improving iTRAQ quantification in mass spectrometry proteomics data.

Hultin-Rosenberg L, Forshed J, Branca RM, Lehtiö J, Johansson HJ

Mol. Cell Proteomics 12 (7) 2021-2031 [2013-07-00; online 2013-03-07]

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DNA methylation: the future of crime scene investigation?

Gršković B, Zrnec D, Vicković S, Popović M, Mršić G

Mol. Biol. Rep. 40 (7) 4349-4360 [2013-07-00; online 2013-05-07]

Affiliated researcher Sanja Vickovic SciLifeLab Fellow

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Computational prospecting for drug-transporter interactions.

Matsson P, Artursson P

Clin. Pharmacol. Ther. 94 (1) 30-32 [2013-07-00; online 2013-04-02]

Affiliated researcher

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Comparative genomics as a tool to understand evolution and disease.

Alföldi J, Lindblad-Toh K

Genome Res. 23 (7) 1063-1068 [2013-07-00; online 2013-07-03]

Affiliated researcher

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Combining CAR T cells and the Bcl-2 family apoptosis inhibitor ABT-737 for treating B-cell malignancy.

Karlsson H, Karlsson SC, Lindqvist AC, ..., Loskog A, Loskog SI

Cancer Gene Ther. 20 (7) 386-393 [2013-07-00; online 2013-06-21]

Affiliated researcher

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Cenani-Lenz syndrome restricted to limb and kidney anomalies associated with a novel LRP4 missense mutation.

Khan TN, Klar J, Ali Z, ..., Baig SM, Dahl N

Eur J Med Genet 56 (7) 371-374 [2013-07-00; online 2013-05-07]

Affiliated researcher

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Active nitrogen-fixing heterotrophic bacteria at and below the chemocline of the central Baltic Sea.

Farnelid H, Bentzon-Tilia M, Andersson AF, ..., Jürgens K, Riemann L

ISME J 7 (7) 1413-1423 [2013-07-00; online 2013-02-28]

Affiliated researcher

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ANGPT2 promoter methylation is strongly associated with gene expression and prognosis in chronic lymphocytic leukemia.

Martinelli S, Kanduri M, Maffei R, ..., Marasca R, Rosenquist R

Epigenetics 8 (7) 720-729 [2013-07-00; online 2013-05-14]

Affiliated researcher

DOI Crossref

A facile and efficient synthesis of tetrahydro-β-carbolines

Desroses M, Koolmeister T, Jacques S, ..., Helleday T, Scobie M

Tetrahedron Letters 54 (27) 3554-3557 [2013-07-00; online 2013-07-00]

Affiliated researcher

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A common structural theme in histone chaperones mimics interhistone contacts.

Elsässer SJ

Trends Biochem. Sci. 38 (7) 333-336 [2013-07-00; online 2013-06-26]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

GenPhyloData: realistic simulation of gene family evolution.

Sjöstrand J, Arvestad L, Lagergren J, Sennblad B

BMC Bioinformatics 14 (-) 209 [2013-06-27; online 2013-06-27]

Affiliated researcher

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Determination of Serotonin and Dopamine Metabolites in Human Brain Microdialysis and Cerebrospinal Fluid Samples by UPLC-MS/MS: Discovery of Intact Glucuronide and Sulfate Conjugates.

Suominen T, Uutela P, Ketola RA, ..., Laakso A, Kostiainen R

PLoS ONE 8 (6) e68007 [2013-06-27; online 2013-06-27]

Affiliated researcher

PubMed DOI Crossref

Continuous Aging of the Human DNA Methylome Throughout the Human Lifespan.

Johansson A, Enroth S, Gyllensten U

PLoS ONE 8 (6) e67378 [2013-06-27; online 2013-06-27]

Affiliated researcher

PubMed DOI Crossref

Constrained H-Phe-Phe-NH2 analogues with high affinity to the substance P 1-7 binding site and with improved metabolic stability and cell permeability.

Fransson R, Sköld C, Kratz JM, ..., Hallberg M, Sandström A

J. Med. Chem. 56 (12) 4953-4965 [2013-06-27; online 2013-06-17]

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PubMed DOI Crossref

The role of adiposity in cardiometabolic traits: a Mendelian randomization analysis.

Fall T, Hägg S, Mägi R, ..., Prokopenko I, European Network for Genetic and Genomic Epidemiology (ENGAGE) consortium

PLoS Med. 10 (6) e1001474 [2013-06-25; online 2013-06-25]

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PubMed DOI Crossref

GWAS of 126,559 individuals identifies genetic variants associated with educational attainment.

Rietveld CA, Medland SE, Derringer J, ..., Cesarini D, Koellinger PD

Science 340 (6139) 1467-1471 [2013-06-21; online 2013-05-30]

Affiliated researcher

PubMed DOI Crossref

Vandetanib combined with a p38 MAPK inhibitor synergistically reduces glioblastoma cell survival.

Sooman L, Lennartsson J, Gullbo J, ..., Blomquist E, Ekman S

Med. Oncol. 30 (3) 638 [2013-06-20; online 2013-06-20]

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PubMed DOI Crossref

MYC inhibition induces metabolic changes leading to accumulation of lipid droplets in tumor cells.

Zirath H, Frenzel A, Oliynyk G, ..., Jakobsson PJ, Henriksson MA

Proc. Natl. Acad. Sci. U.S.A. 110 (25) 10258-10263 [2013-06-18; online 2013-06-03]

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PubMed DOI Crossref

Behavioural and Brain Gene Expression Profiling in Pigs during Tail Biting Outbreaks - Evidence of a Tail Biting Resistant Phenotype.

Brunberg E, Jensen P, Isaksson A, Keeling LJ

PLoS ONE 8 (6) e66513 [2013-06-18; online 2013-06-18]

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PubMed DOI Crossref

Learning oncogenetic networks by reducing to mixed integer linear programming.

Shahrabi Farahani H, Lagergren J

PLoS ONE 8 (6) e65773 [2013-06-14; online 2013-06-14]

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PubMed DOI Crossref

Hieranoid: hierarchical orthology inference.

Schreiber F, Sonnhammer ELL

J. Mol. Biol. 425 (11) 2072-2081 [2013-06-12; online 2013-02-26]

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PubMed DOI Crossref

AZ-4217: a high potency BACE inhibitor displaying acute central efficacy in different in vivo models and reduced amyloid deposition in Tg2576 mice.

Eketjäll S, Janson J, Jeppsson F, ..., Swahn BM, Fälting J

J. Neurosci. 33 (24) 10075-10084 [2013-06-12; online 2013-06-14]

Affiliated researcher

PubMed DOI Crossref

Membranous expression of podocalyxin-like protein is an independent factor of poor prognosis in urothelial bladder cancer.

Boman K, Larsson AH, Segersten U, ..., Malmström PU, Jirström K

Br. J. Cancer 108 (11) 2321-2328 [2013-06-11; online 2013-05-07]

Affiliated researcher

PubMed DOI Crossref

Genotyping of single nucleotide polymorphisms by melting curve analysis using thin film semi-transparent heaters integrated in a lab-on-foil system.

Ohlander A, Zilio C, Hammerle T, ..., Bock K, Russom A

Lab Chip 13 (11) 2075-2082 [2013-06-07; online 2013-04-18]

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PubMed DOI Crossref

Contribution of antibody-based protein profiling to the human Chromosome-centric Proteome Project (C-HPP).

Fagerberg L, Oksvold P, Skogs M, ..., von Feilitzen K, Uhlén M

J. Proteome Res. 12 (6) 2439-2448 [2013-06-07; online 2012-12-31]

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PubMed DOI Crossref

Orbitrap mass spectrometry.

Zubarev RA, Makarov A

Anal. Chem. 85 (11) 5288-5296 [2013-06-04; online 2013-05-13]

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PubMed DOI Crossref

Structural Basis for Activation of ZAP-70 by Phosphorylation of the SH2-Kinase Linker

Yan Q, Barros T, Visperas PR, ..., Weiss A, Kuriyan J

Molecular and Cellular Biology 33 (11) 2188-2201 [2013-06-01; online 2013-03-25]

SciLifeLab Fellow Sebastian Deindl

DOI Crossref

Serotonin transporter genotype by environment: Studies on alcohol use and misuse in non-human and human primates

Todkar A, Nilsson K, Oreland L, Hodgins S, Comasco E

- 4 (2) 241-250 [2013-06-01; online 2013-06-09]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

The impact of splicing on protein domain architecture.

Light S, Elofsson A

Curr. Opin. Struct. Biol. 23 (3) 451-458 [2013-06-00; online 2013-04-04]

Affiliated researcher

DOI Crossref

The geometry and electronic structure of Aristolochic acid: possible implications for a frozen resonance

Manzetti S, Lu T

J. Phys. Org. Chem. 26 (6) 473-483 [2013-06-00; online 2013-05-08]

Affiliated researcher

PubMed DOI Crossref

Solid-phase proximity ligation assays for individual or parallel protein analyses with readout via real-time PCR or sequencing.

Nong RY, Wu D, Yan J, ..., Landegren U, Darmanis S

Nat Protoc 8 (6) 1234-1248 [2013-06-00; online 2013-05-30]

Affiliated researcher

PubMed DOI Crossref

Quantitative intact proteomics investigations of alveolar macrophages in sarcoidosis.

Silva E, Souchelnytskyi S, Kasuga K, ..., Grunewald J, Wheelock ÅM

Eur. Respir. J. 41 (6) 1331-1339 [2013-06-00; online 2012-10-11]

Affiliated researcher

PubMed DOI Crossref

Quantitative insights into actin rearrangements and bacterial target site selection from Salmonella Typhimurium infection of micropatterned cells

Vonaesch P, Cardini S, Sellin ME, ..., Hardt WD, Schauer K

Cell Microbiol - (-) n/a-n/a [2013-06-00; online 2013-05-30]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Prognostic significance in breast cancer of a gene signature capturing stromal PDGF signaling.

Frings O, Augsten M, Tobin NP, ..., Ostman A, Sonnhammer EL

Am. J. Pathol. 182 (6) 2037-2047 [2013-06-00; online 2013-04-10]

Affiliated researcher

PubMed DOI Crossref

Parallel visualization of multiple protein complexes in individual cells in tumor tissue.

Leuchowius KJ, Clausson CM, Grannas K, ..., Landegren U, Söderberg O

Mol. Cell Proteomics 12 (6) 1563-1571 [2013-06-00; online 2013-02-22]

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PubMed DOI Crossref

Molecular consequences of animal breeding.

Andersson L

Curr. Opin. Genet. Dev. 23 (3) 295-301 [2013-06-00; online 2013-04-16]

Affiliated researcher

PubMed DOI Crossref

Metabolic engineering of yeast for production of fuels and chemicals.

Nielsen J, Larsson C, van Maris A, Pronk J

Curr. Opin. Biotechnol. 24 (3) 398-404 [2013-06-00; online 2013-04-20]

Affiliated researcher

PubMed DOI Crossref

Initial quantitative proteomic map of 28 mouse tissues using the SILAC mouse.

Geiger T, Velic A, Macek B, ..., Cox J, Mann M

Mol. Cell Proteomics 12 (6) 1709-1722 [2013-06-00; online 2013-02-22]

Affiliated researcher

PubMed DOI Crossref

Imatinib mesilate-induced phosphatidylinositol 3-kinase signalling and improved survival in insulin-producing cells: role of Src homology 2-containing inositol 5'-phosphatase interaction with c-Abl.

Mokhtari D, Al-Amin A, Turpaev K, ..., Tengholm A, Welsh N

Diabetologia 56 (6) 1327-1338 [2013-06-00; online 2013-03-05]

Affiliated researcher

PubMed DOI Crossref

Identification of heart rate-associated loci and their effects on cardiac conduction and rhythm disorders.

den Hoed M, Eijgelsheim M, Esko T, ..., Samani NJ, Loos RJ

Nat. Genet. 45 (6) 621-631 [2013-06-00; online 2013-04-14]

Affiliated researcher

PubMed DOI Crossref

Dynamin inhibitors impair endocytosis and mitogenic signaling of PDGF.

Sadowski Ł, Jastrzębski K, Kalaidzidis Y, ..., Hellberg C, Miaczynska M

Traffic 14 (6) 725-736 [2013-06-00; online 2013-03-12]

Affiliated researcher

PubMed DOI Crossref

Coronary heart disease in systemic lupus erythematosus is associated with interferon regulatory factor-8 gene variants.

Leonard D, Svenungsson E, Sandling JK, ..., Syvänen AC, Rönnblom L

Circ Cardiovasc Genet 6 (3) 255-263 [2013-06-00; online 2013-05-09]

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PubMed DOI Crossref

Contribution of IKBKE and IFIH1 gene variants to SLE susceptibility.

Wang C, Ahlford A, Laxman N, ..., Rönnblom L, Syvänen AC

Genes Immun. 14 (4) 217-222 [2013-06-00; online 2013-03-28]

Affiliated researcher

PubMed DOI Crossref

Consequences of membrane topography.

Parmryd I, Onfelt B

FEBS J. 280 (12) 2775-2784 [2013-06-00; online 2013-03-21]

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PubMed DOI Crossref

Advanced biofuel production by the yeast Saccharomyces cerevisiae.

Buijs NA, Siewers V, Nielsen J

Curr Opin Chem Biol 17 (3) 480-488 [2013-06-00; online 2013-04-27]

Affiliated researcher

PubMed DOI Crossref

5-Aza-2'-deoxycytidine causes replication lesions that require Fanconi anemia-dependent homologous recombination for repair.

Orta ML, Calderón-Montaño JM, Domínguez I, ..., Mateos S, Helleday T

Nucleic Acids Res. 41 (11) 5827-5836 [2013-06-00; online 2013-04-22]

Affiliated researcher

PubMed DOI Crossref

The Fer tyrosine kinase is important for platelet-derived growth factor-BB-induced signal transducer and activator of transcription 3 (STAT3) protein phosphorylation, colony formation in soft agar, and tumor growth in vivo.

Lennartsson J, Ma H, Wardega P, ..., Hellberg C, Heldin CH

J. Biol. Chem. 288 (22) 15736-15744 [2013-05-31; online 2013-04-15]

Affiliated researcher

PubMed DOI Crossref

The Norway spruce genome sequence and conifer genome evolution.

Nystedt B, Street NR, Wetterbom A, ..., Lundeberg J, Jansson S

Nature 497 (7451) 579-584 [2013-05-30; online 2013-05-22]

Affiliated researcher Kristoffer Sahlin SciLifeLab Fellow

PubMed DOI Crossref

Mechanistic Insights into the LsrK Kinase Required for Autoinducer-2 Quorum Sensing Activation

Zhu J, Hixon MS, Globisch D, Kaufmann GF, Janda KD

J. Am. Chem. Soc. 135 (21) 7827-7830 [2013-05-29; online 2013-05-16]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Role of aspartate 132 at the orifice of a proton pathway in cytochrome c oxidase

Johansson AL, Hogbom M, Carlsson J, Gennis RB, Brzezinski P

Proceedings of the National Academy of Sciences 110 (22) 8912-8917 [2013-05-28; online 2013-05-14]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Metagenomic de novo assembly of an aquatic representative of the verrucomicrobial class Spartobacteria.

Herlemann DP, Lundin D, Labrenz M, ..., Aspeborg H, Andersson AF

MBio 4 (3) e00569-e00512 [2013-05-28; online 2013-05-28]

Affiliated researcher

PubMed DOI Crossref

Unsupervised genome-wide recognition of local relationship patterns.

Zamani N, Russell P, Lantz H, ..., Jern P, Grabherr MG

BMC Genomics 14 (-) 347 [2013-05-24; online 2013-05-24]

Affiliated researcher

PubMed DOI Crossref

Therapeutic hypothermia activates the endothelin and nitric oxide systems after cardiac arrest in a pig model of cardiopulmonary resuscitation.

Zoerner F, Wiklund L, Miclescu A, Martijn C

PLoS ONE 8 (5) e64792 [2013-05-23; online 2013-05-23]

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Prediction of clinically relevant safety signals of nephrotoxicity through plasma metabolite profiling.

Mattes WB, Kamp HG, Fabian E, ..., Ruiz-Noppinger P, Piccoli SP

Biomed Res Int 2013 (-) 202497 [2013-05-21; online 2013-05-21]

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Dynamic gradients of an intermediate filament-like cytoskeleton are recruited by a polarity landmark during apical growth.

Fuchino K, Bagchi S, Cantlay S, ..., Flärdh K, Ausmees N

Proc. Natl. Acad. Sci. U.S.A. 110 (21) E1889-E1897 [2013-05-21; online 2013-05-02]

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A texture based pattern recognition approach to distinguish melanoma from non-melanoma cells in histopathological tissue microarray sections.

Rexhepaj E, Agnarsdóttir M, Bergman J, ..., Lundberg E, Ponten F

PLoS ONE 8 (5) e62070 [2013-05-17; online 2013-05-17]

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Transcription factor binding kinetics constrain noise suppression via negative feedback.

Grönlund A, Lötstedt P, Elf J

Nat Commun 4 (-) 1864 [2013-05-16; online 2013-05-16]

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The genomics of selection in dogs and the parallel evolution between dogs and humans.

Wang GD, Zhai W, Yang HC, ..., Wu CI, Zhang YP

Nat Commun 4 (-) 1860 [2013-05-16; online 2013-05-16]

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Ultra-rare mutation in long-range enhancer predisposes to thyroid carcinoma with high penetrance.

He H, Li W, Wu D, ..., Wang Q, de la Chapelle A

PLoS ONE 8 (5) e61920 [2013-05-14; online 2013-05-14]

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Adaptive mutations and replacements of virulence traits in the Escherichia coli O104:H4 outbreak population.

Guy L, Jernberg C, Arvén Norling J, ..., Engstrand L, Andersson SG

PLoS ONE 8 (5) e63027 [2013-05-10; online 2013-05-10]

Affiliated researcher

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Crystal structure of the complex between prokaryotic ubiquitin-like protein and its ligase PafA.

Barandun J, Delley CL, Ban N, Weber-Ban E

J. Am. Chem. Soc. 135 (18) 6794-6797 [2013-05-08; online 2013-04-23]

Jonas Barandun SciLifeLab Fellow

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On the role of thermal backbone fluctuations in myoglobin ligand gate dynamics.

Krokhotin A, Niemi AJ, Peng X

J Chem Phys 138 (17) 175101 [2013-05-07; online 2013-05-10]

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Multiplex analysis of enzyme kinetics and inhibition by droplet microfluidics using picoinjectors.

Sjostrom SL, Joensson HN, Svahn HA

Lab Chip 13 (9) 1754-1761 [2013-05-07; online 2013-03-13]

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No ancient DNA damage in Actinobacteria from the Neanderthal bone.

Zaremba-Niedźwiedzka K, Andersson SG

PLoS ONE 8 (5) e62799 [2013-05-03; online 2013-05-03]

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The zebrafish orthologue of the dyslexia candidate gene DYX1C1 is essential for cilia growth and function.

Chandrasekar G, Vesterlund L, Hultenby K, Tapia-Páez I, Kere J

PLoS ONE 8 (5) e63123 [2013-05-01; online 2013-05-01]

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Genome-wide association study of susceptibility loci for cervical cancer.

Chen D, Juko-Pecirep I, Hammer J, ..., Wilander E, Gyllensten U

J. Natl. Cancer Inst. 105 (9) 624-633 [2013-05-01; online 2013-03-12]

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Expression of carnitine palmitoyl-CoA transferase-1B is influenced by a cis-acting eQTL in two chicken lines selected for high and low body weight.

Ka S, Markljung E, Ring H, ..., Andersson L, Hallböök F

Physiol. Genomics 45 (9) 367-376 [2013-05-01; online 2013-03-19]

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Association of the protein-tyrosine phosphatase DEP-1 with its substrate FLT3 visualized by in situ proximity ligation assay.

Böhmer SA, Weibrecht I, Söderberg O, Böhmer FD

PLoS ONE 8 (5) e62871 [2013-05-01; online 2013-05-01]

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Alterations in the motor neuron-renshaw cell circuit in the Sod1(G93A) mouse model.

Wootz H, Fitzsimons-Kantamneni E, Larhammar M, ..., Kullander K, Alvarez FJ

J. Comp. Neurol. 521 (7) 1449-1469 [2013-05-01; online 2012-11-23]

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Stronger signal of recent selection for lactase persistence in Maasai than in Europeans.

Schlebusch CM, Sjödin P, Skoglund P, Jakobsson M

Eur. J. Hum. Genet. 21 (5) 550-553 [2013-05-00; online 2012-09-05]

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Optimal sparsity criteria for network inference.

Tjärnberg A, Nordling TE, Studham M, Sonnhammer EL

J. Comput. Biol. 20 (5) 398-408 [2013-05-00; online 2013-05-07]

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Molecular Characterization of Parabasalian Symbionts Coronympha clevelandii and Trichonympha subquasilla from the Hawaiian Lowland Tree Termite Incisitermes immigrans

James ER, Burki F, Todd Harper J, Scheffrahn RH, Keeling PJ

J. Eukaryot. Microbiol. 60 (3) 313-316 [2013-05-00; online 2013-02-05]

Fabien Burki SciLifeLab Fellow

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Membrane protein shaving with thermolysin can be used to evaluate topology predictors.

Bendz M, Skwark M, Nilsson D, ..., Käll L, Elofsson A

Proteomics 13 (9) 1467-1480 [2013-05-00; online 2013-03-21]

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Long indels are disordered: a study of disorder and indels in homologous eukaryotic proteins.

Light S, Sagit R, Ekman D, Elofsson A

Biochim. Biophys. Acta 1834 (5) 890-897 [2013-05-00; online 2013-01-17]

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Inferring population size changes with sequence and SNP data: lessons from human bottlenecks.

Gattepaille LM, Jakobsson M, Blum MG

Heredity (Edinb) 110 (5) 409-419 [2013-05-00; online 2013-02-20]

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Impact of sequence diversity in the Moraxella catarrhalis UspA2/UspA2H head domain on vitronectin binding and antigenic variation.

Su YC, Hallström BM, Bernhard S, Singh B, Riesbeck K

Microbes Infect. 15 (5) 375-387 [2013-05-00; online 2013-03-06]

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Glycoprotein 130 promotes human blastocyst development in vitro.

Hambiliki F, Hanrieder J, Bergquist J, ..., Stavreus-Evers A, Wånggren K

Fertil. Steril. 99 (6) 1592-1599 [2013-05-00; online 2013-01-30]

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Global microRNA profiling of well-differentiated small intestinal neuroendocrine tumors.

Li SC, Essaghir A, Martijn C, ..., Oberg K, Giandomenico V

Mod. Pathol. 26 (5) 685-696 [2013-05-00; online 2013-01-18]

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Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture.

Berndt SI, Gustafsson S, Mägi R, ..., Loos RJ, Ingelsson E

Nat. Genet. 45 (5) 501-512 [2013-05-00; online 2013-04-07]

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Genome-wide analysis in German shepherd dogs reveals association of a locus on CFA 27 with atopic dermatitis.

Tengvall K, Kierczak M, Bergvall K, ..., Hedhammar Å, Lindblad-Toh K

PLoS Genet 9 (5) e1003475 [2013-05-00; online 2013-05-09]

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Genetic and environmental determinants for disease risk in subsets of rheumatoid arthritis defined by the anticitrullinated protein/peptide antibody fine specificity profile.

Lundberg K, Bengtsson C, Kharlamova N, ..., Alfredsson L, Klareskog L

Ann. Rheum. Dis. 72 (5) 652-658 [2013-05-00; online 2012-06-01]

Iskra Pollak Dorocic SciLifeLab Fellow

Finding Optimal Bayesian Networks Using Precedence Constraints

Parviainen P, Koivisto M

Journal of Machine Learning Research 14 (-) 1387-1415 [2013-05-00]

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ABCB1 gene polymorphisms are associated with fatal intoxications involving venlafaxine but not citalopram.

Karlsson L, Green H, Zackrisson AL, ..., Ahlner J, Kugelberg FC

Int. J. Legal Med. 127 (3) 579-586 [2013-05-00; online 2013-03-21]

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5-Fluoro-[β-¹¹C]-L-tryptophan is a functional analogue of 5-hydroxy-[β-¹¹C]-L-tryptophan in vitro but not in vivo.

Eriksson O, Selvaraju R, Borg B, ..., Estrada S, Antoni G

Nucl. Med. Biol. 40 (4) 567-575 [2013-05-00; online 2013-03-22]

Olof Eriksson SciLifeLab Fellow

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Extensive transcriptional heterogeneity revealed by isoform profiling

Pelechano V, Wei W, Steinmetz LM

Nature 497 (7447) 127-131 [2013-04-24; online 2013-04-24]

SciLifeLab Fellow Vicent Pelechano

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Majority of differentially expressed genes are down-regulated during malignant transformation in a four-stage model.

Danielsson F, Skogs M, Huss M, ..., Uhlén M, Lundberg E

Proc. Natl. Acad. Sci. U.S.A. 110 (17) 6853-6858 [2013-04-23; online 2013-04-08]

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GAM-NGS: genomic assemblies merger for next generation sequencing.

Vicedomini R, Vezzi F, Scalabrin S, Arvestad L, Policriti A

BMC Bioinformatics 14 Suppl 7 (-) S6 [2013-04-22; online 2013-04-22]

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Detection of rifampicin resistance in Mycobacterium tuberculosis by padlock probes and magnetic nanobead-based readout.

Engström A, Zardán Gómez de la Torre T, Strømme M, Nilsson M, Herthnek D

PLoS ONE 8 (4) e62015 [2013-04-22; online 2013-04-22]

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Lab-on-DVD: standard DVD drives as a novel laser scanning microscope for image based point of care diagnostics.

Ramachandraiah H, Amasia M, Cole J, ..., Lione R, Russom A

Lab Chip 13 (8) 1578-1585 [2013-04-21; online 2013-02-27]

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An N-terminal SIAH-interacting motif regulates the stability of the ubiquitin specific protease (USP)-19.

Velasco K, Zhao B, Callegari S, ..., Masucci MG, Lindsten K

Biochem. Biophys. Res. Commun. 433 (4) 390-395 [2013-04-19; online 2013-03-13]

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The African coelacanth genome provides insights into tetrapod evolution.

Amemiya CT, Alföldi J, Lee AP, ..., Meyer A, Lindblad-Toh K

Nature 496 (7445) 311-316 [2013-04-18; online 2013-04-20]

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Pseudomonas aeruginosa disrupts Caenorhabditis elegans iron homeostasis, causing a hypoxic response and death.

Kirienko NV, Kirienko DR, Larkins-Ford J, ..., Ruvkun G, Ausubel FM

Cell Host Microbe 13 (4) 406-416 [2013-04-17; online 2013-04-23]

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Evolutionary consequences of self-fertilization in plants

Wright SI, Kalisz S, Slotte T

Proceedings of the Royal Society B: Biological Sciences 280 (1760) 20130133-20130133 [2013-04-17; online 2013-04-17]

Affiliated researcher SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Co-culture of neural crest stem cells (NCSC) and insulin producing beta-TC6 cells results in cadherin junctions and protection against cytokine-induced beta-cell death.

Ngamjariyawat A, Turpaev K, Vasylovska S, Kozlova EN, Welsh N

PLoS ONE 8 (4) e61828 [2013-04-17; online 2013-04-17]

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Renal sensory and sympathetic nerves reinnervate the kidney in a similar time-dependent fashion after renal denervation in rats.

Mulder J, Hökfelt T, Knuepfer MM, Kopp UC

Am. J. Physiol. Regul. Integr. Comp. Physiol. 304 (8) R675-R682 [2013-04-15; online 2013-02-13]

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Photoconversion of bodipy-labeled lipid analogues.

Sezgin E, Chwastek G, Aydogan G, ..., Simons K, Schwille P

Chembiochem 14 (6) 695-698 [2013-04-15; online 2013-03-19]

Erdinc Sezgin SciLifeLab Fellow

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Conduction in a Biological Sodium Selective Channel

Stock L, Delemotte L, Carnevale V, Treptow W, Klein ML

J. Phys. Chem. B 117 (14) 3782-3789 [2013-04-11; online 2013-03-27]

Lucie Delemotte SciLifeLab Fellow

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The network organization of cancer-associated protein complexes in human tissues.

Zhao J, Lee SH, Huss M, Holme P

Sci Rep 3 (-) 1583 [2013-04-10; online 2013-04-10]

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The ESR1 gene is associated with risk for canine mammary tumours.

Borge KS, Melin M, Rivera P, ..., Lindblad-Toh K, Lingaas F

BMC Vet. Res. 9 (-) 69 [2013-04-10; online 2013-04-10]

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European H16N3 gull influenza virus attaches to the human respiratory tract and eye.

Lindskog C, Ellström P, Olsen B, ..., Kuiken T, Jourdain E

PLoS ONE 8 (4) e60757 [2013-04-08; online 2013-04-08]

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Decreased expression of RNA-binding motif protein 3 correlates with tumour progression and poor prognosis in urothelial bladder cancer.

Boman K, Segersten U, Ahlgren G, ..., Jirström K, Malmström PU

BMC Urol 13 (-) 17 [2013-04-08; online 2013-04-08]

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The effects of 5-fluorouracil on the proteome of colon cancer cells.

Marin-Vicente C, Lyutvinskiy Y, Romans Fuertes P, Zubarev RA, Visa N

J. Proteome Res. 12 (4) 1969-1979 [2013-04-05; online 2013-03-21]

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Genetic determinants of dabigatran plasma levels and their relation to bleeding.

Paré G, Eriksson N, Lehr T, ..., Yusuf S, Wallentin L

Circulation 127 (13) 1404-1412 [2013-04-02; online 2013-03-06]

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RNA-binding protein QKI regulates Glial fibrillary acidic protein expression in human astrocytes.

Radomska KJ, Halvardson J, Reinius B, ..., Feuk L, Jazin E

Hum. Mol. Genet. 22 (7) 1373-1382 [2013-04-01; online 2013-01-15]

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GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit.

Pronk S, Páll S, Schulz R, ..., Hess B, Lindahl E

Bioinformatics 29 (7) 845-854 [2013-04-01; online 2013-02-13]

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Coalescent-based genome analyses resolve the early branches of the euarchontoglires.

Kumar V, Hallström BM, Janke A

PLoS ONE 8 (4) e60019 [2013-04-01; online 2013-04-01]

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p53 regulates epithelial-mesenchymal transition induced by transforming growth factor β.

Termén S, Tan EJ, Heldin CH, Moustakas A

J. Cell. Physiol. 228 (4) 801-813 [2013-04-00; online 2012-09-29]

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Welander distal myopathy caused by an ancient founder mutation in TIA1 associated with perturbed splicing.

Klar J, Sobol M, Melberg A, ..., Casar-Borota O, Dahl N

Hum. Mutat. 34 (4) 572-577 [2013-04-00; online 2013-01-26]

Affiliated researcher

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The mitochondrial and autosomal mutation landscapes of prostate cancer.

Lindberg J, Mills IG, Klevebring D, ..., Egevad L, Grönberg H

Eur. Urol. 63 (4) 702-708 [2013-04-00; online 2012-12-05]

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Targeting HMG-CoA reductase with statins in a window-of-opportunity breast cancer trial.

Bjarnadottir O, Romero Q, Bendahl PO, ..., Grabau D, Borgquist S

Breast Cancer Res. Treat. 138 (2) 499-508 [2013-04-00; online 2013-03-08]

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Pulmonary delivery of d-methionine is associated with an increase in ALCAR and glutathione in cochlear fluids.

Grondin Y, Cotanche DA, Manneberg O, ..., Jackson RL, Rogers RA

Hear. Res. 298 (-) 93-103 [2013-04-00; online 2013-01-04]

Affiliated researcher

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Probing microscopic material properties inside simulated membranes through spatially resolved three-dimensional local pressure fields and surface tensions.

Kasson PM, Hess B, Lindahl E

Chem. Phys. Lipids 169 (-) 106-112 [2013-04-00; online 2013-01-12]

Affiliated researcher

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P-cadherin functional role is dependent on E-cadherin cellular context: a proof of concept using the breast cancer model.

Ribeiro AS, Sousa B, Carreto L, ..., Schmitt F, Paredes J

J. Pathol. 229 (5) 705-718 [2013-04-00; online 2013-01-24]

Affiliated researcher

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Nucleotide-resolution DNA double-strand break mapping by next-generation sequencing.

Crosetto N, Mitra A, Silva MJ, ..., Rowicka M, Dikic I

Nat. Methods 10 (4) 361-365 [2013-04-00; online 2013-03-17]

Affiliated researcher Magda Bienko SciLifeLab Fellow

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Low background and high contrast PET imaging of amyloid-β with [11C]AZD2995 and [11C]AZD2184 in Alzheimer's disease patients.

Forsberg A, Juréus A, Cselényi Z, ..., Farde L, Svensson S

Eur. J. Nucl. Med. Mol. Imaging 40 (4) 580-593 [2013-04-00; online 2013-01-17]

Affiliated researcher

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Live cell imaging in a micro-array of acoustic traps facilitates quantification of natural killer cell heterogeneity.

Christakou AE, Ohlin M, Vanherberghen B, ..., Wiklund M, Önfelt B

Integr Biol (Camb) 5 (4) 712-719 [2013-04-00; online 2013-02-26]

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L1CAM from human melanoma carries a novel type of N-glycan with Galβ1-4Galβ1- motif. Involvement of N-linked glycans in migratory and invasive behaviour of melanoma cells.

Hoja-Łukowicz D, Link-Lenczowski P, Carpentieri A, ..., Bergquist J, Lityńska A

Glycoconj. J. 30 (3) 205-225 [2013-04-00; online 2012-04-29]

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Immunofluorescence and fluorescent-protein tagging show high correlation for protein localization in mammalian cells.

Stadler C, Rexhepaj E, Singan VR, ..., Simpson JC, Lundberg E

Nat. Methods 10 (4) 315-323 [2013-04-00; online 2013-02-24]

Affiliated researcher

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Hereditary uveal melanoma: a report of a germline mutation in BAP1.

Höiom V, Edsgärd D, Helgadottir H, ..., Emanuelsson O, Hansson J

Genes Chromosomes Cancer 52 (4) 378-384 [2013-04-00; online 2013-01-23]

Affiliated researcher

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Global profiling of miRNAs and the hairpin precursors: insights into miRNA processing and novel miRNA discovery

Li N, You X, Chen T, ..., Hu Y, Chen W

Nucleic Acids Res. 41 (6) 3619-3634 [2013-04-00; online 2013-02-08]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Cycling of RNAs on Hfq.

Wagner EG

RNA Biol 10 (4) 619-626 [2013-04-00; online 2013-03-06]

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Comparative genomics of Wolbachia and the bacterial species concept.

Ellegaard KM, Klasson L, Näslund K, Bourtzis K, Andersson SG

PLoS Genet 9 (4) e1003381 [2013-04-00; online 2013-04-04]

Affiliated researcher

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Cis association of leukocyte Ig-like receptor 1 with MHC class I modulates accessibility to antibodies and HCMV UL18.

Li NL, Fu L, Uchtenhagen H, Achour A, Burshtyn DN

Eur. J. Immunol. 43 (4) 1042-1052 [2013-04-00; online 2013-03-04]

Affiliated researcher

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Changes in mortality and causes of death in the Swedish Down syndrome population.

Englund A, Jonsson B, Zander CS, Gustafsson J, Annerén G

Am. J. Med. Genet. A 161A (4) 642-649 [2013-04-00; online 2013-02-22]

Affiliated researcher

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Genetic variants from lipid-related pathways and risk for incident myocardial infarction.

Song C, Pedersen NL, Reynolds CA, ..., Prince JA, Ingelsson E

PLoS ONE 8 (3) e60454 [2013-03-29; online 2013-03-29]

Affiliated researcher

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Genome-wide mechanisms of Smad binding.

Morikawa M, Koinuma D, Miyazono K, Heldin CH

Oncogene 32 (13) 1609-1615 [2013-03-28; online 2012-05-21]

Affiliated researcher

PubMed DOI Crossref

Determining the calibration of confidence estimation procedures for unique peptides in shotgun proteomics.

Granholm V, Navarro JF, Noble WS, Käll L

J Proteomics 80 (-) 123-131 [2013-03-27; online 2012-12-23]

Affiliated researcher

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Patchwork: allele-specific copy number analysis of whole-genome sequenced tumor tissue.

Mayrhofer M, DiLorenzo S, Isaksson A

Genome Biol. 14 (3) R24 [2013-03-25; online 2013-03-25]

Affiliated researcher

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ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions.

Hayward A, Ghazal A, Andersson G, Andersson L, Jern P

PLoS ONE 8 (3) e59940 [2013-03-22; online 2013-03-22]

Affiliated researcher

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Effect of gene, environment and maternal depressive symptoms on pre-adolescence behavior problems - a longitudinal study.

Agnafors S, Comasco E, Bladh M, ..., Oreland L, Svedin CG

Child Adolesc Psychiatry Ment Health 7 (1) 10 [2013-03-22; online 2013-03-22]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

The genomic signature of dog domestication reveals adaptation to a starch-rich diet.

Axelsson E, Ratnakumar A, Arendt ML, ..., Hedhammar A, Lindblad-Toh K

Nature 495 (7441) 360-364 [2013-03-21; online 2013-01-23]

Affiliated researcher

PubMed DOI Crossref

Identification of genetic variants influencing the human plasma proteome.

Johansson Å, Enroth S, Palmblad M, ..., Bergquist J, Gyllensten U

Proc. Natl. Acad. Sci. U.S.A. 110 (12) 4673-4678 [2013-03-19; online 2013-03-04]

Affiliated researcher

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Green sulphur bacteria as a component of the photosynthetic plankton community in small dimictic humic lakes with an anoxic hypolimnion

Karhunen J, Arvola L, Peura S, Tiirola M

Aquat. Microb. Ecol. 68 (3) 267-272 [2013-03-18; online 2013-03-18]

Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

Global Gene Expression Profiling Reveals SPINK1 as a Potential Hepatocellular Carcinoma Marker

Marshall A, Lukk M, Kutter C, ..., Alexander G, Odom DT

PLoS ONE 8 (3) e59459 [2013-03-18; online 2013-03-18]

Claudia Kutter SciLifeLab Fellow

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Cthulhu Macrofasciculumque n. g., n. sp. and Cthylla Microfasciculumque n. g., n. sp., a Newly Identified Lineage of Parabasalian Termite Symbionts

James ER, Okamoto N, Burki F, Scheffrahn RH, Keeling PJ

PLoS ONE 8 (3) e58509 [2013-03-18; online 2013-03-18]

Fabien Burki SciLifeLab Fellow

DOI Crossref

Structure of polymer and particle aggregates in hydrogel composites

Berts I, Gerelli Y, Hilborn J, Rennie AR

J. Polym. Sci. B Polym. Phys. 51 (6) 421-429 [2013-03-15; online 2012-12-18]

Affiliated researcher

PubMed DOI Crossref

Molecular networks of DYX1C1 gene show connection to neuronal migration genes and cytoskeletal proteins.

Tammimies K, Vitezic M, Matsson H, ..., Kere J, Tapia-Páez I

Biol. Psychiatry 73 (6) 583-590 [2013-03-15; online 2012-10-01]

Affiliated researcher

PubMed DOI Crossref

Human prostasomes express glycolytic enzymes with capacity for ATP production.

Ronquist KG, Ek B, Stavreus-Evers A, Larsson A, Ronquist G

Am. J. Physiol. Endocrinol. Metab. 304 (6) E576-E582 [2013-03-15; online 2013-01-22]

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PubMed DOI Crossref

Castration therapy results in decreased Ku70 levels in prostate cancer.

Al-Ubaidi FL, Schultz N, Loseva O, ..., Granfors T, Helleday T

Clin. Cancer Res. 19 (6) 1547-1556 [2013-03-15; online 2013-01-24]

Affiliated researcher

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Transcriptome of the alternative ethanol production strain Dekkera bruxellensis CBS 11270 in sugar limited, low oxygen cultivation.

Tiukova IA, Petterson ME, Tellgren-Roth C, ..., Pettersson OV, Passoth V

PLoS ONE 8 (3) e58455 [2013-03-13; online 2013-03-13]

Affiliated researcher

DOI Crossref

Smart Design of Stable Extracellular Matrix Mimetic Hydrogel: Synthesis, Characterization, and In Vitro and In Vivo Evaluation for Tissue Engineering

Oommen OP, Wang S, Kisiel M, ..., Hilborn J, Varghese OP

Adv. Funct. Mater. 23 (10) 1273-1280 [2013-03-13; online 2012-10-12]

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Onchocerca volvulus-neurotransmitter tyramine is a biomarker for river blindness

Globisch D, Moreno AY, Hixon MS, ..., Hoerauf A, Janda KD

Proceedings of the National Academy of Sciences 110 (11) 4218-4223 [2013-03-12; online 2013-02-25]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Hierarchical molecular tagging to resolve long continuous sequences by massively parallel sequencing.

Lundin S, Gruselius J, Nystedt B, ..., Käller M, Lundeberg J

Sci Rep 3 (-) 1186 [2013-03-09; online 2013-03-09]

Affiliated researcher

DOI Crossref

Blinking, Flickering, and Correlation in Fluorescence of Single Colloidal CdSe Quantum Dots with Different Shells under Different Excitations

Li L, Tian G, Luo Y, Brismar H, Fu Y

J. Phys. Chem. C 117 (9) 4844-4851 [2013-03-07; online 2013-02-21]

Affiliated researcher

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TagGD: fast and accurate software for DNA Tag generation and demultiplexing.

Costea PI, Lundeberg J, Akan P

PLoS ONE 8 (3) e57521 [2013-03-04; online 2013-03-04]

Affiliated researcher

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The Epstein-Barr virus nuclear antigen-1 reprograms transcription by mimicry of high mobility group A proteins.

Coppotelli G, Mughal N, Callegari S, ..., Moustakas A, Masucci MG

Nucleic Acids Res. 41 (5) 2950-2962 [2013-03-01; online 2013-01-28]

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An efficient method for genome-wide polyadenylation site mapping and RNA quantification

Wilkening S, Pelechano V, Järvelin AI, ..., Benes V, Steinmetz LM

Nucleic Acids Res. 41 (5) e65-e65 [2013-03-01; online 2013-01-07]

SciLifeLab Fellow Vicent Pelechano

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The challenge of the proteome dynamic range and its implications for in-depth proteomics.

Zubarev RA

Proteomics 13 (5) 723-726 [2013-03-00; online 2013-01-12]

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Mutations causing medullary cystic kidney disease type 1 lie in a large VNTR in MUC1 missed by massively parallel sequencing.

Kirby A, Gnirke A, Jaffe DB, ..., Lander ES, Daly MJ

Nat. Genet. 45 (3) 299-303 [2013-03-00; online 2013-02-10]

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MALDI imaging of post-mortem human spinal cord in amyotrophic lateral sclerosis.

Hanrieder J, Ekegren T, Andersson M, Bergquist J

J. Neurochem. 124 (5) 695-707 [2013-03-00; online 2013-01-28]

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Ligand binding properties of human galanin receptors.

Jurkowski W, Yazdi S, Elofsson A

Mol. Membr. Biol. 30 (2) 206-216 [2013-03-00; online 2012-12-13]

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Impact of the first tumor response at eight weeks on overall survival in metastatic breast cancer patients treated with first-line combination chemotherapy.

Suzuki C, Blomqvist L, Hatschek T, ..., Jacobsson H, Glimelius B

Med. Oncol. 30 (1) 415 [2013-03-00; online 2013-01-16]

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Higher magnesium intake is associated with lower fasting glucose and insulin, with no evidence of interaction with select genetic loci, in a meta-analysis of 15 CHARGE Consortium Studies.

Hruby A, Ngwa JS, Renström F, ..., McKeown NM, Nettleton JA

J. Nutr. 143 (3) 345-353 [2013-03-00; online 2013-01-23]

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Fine-mapping of restless legs locus 4 (RLS4) identifies a haplotype over the SPATS2L and KCTD18 genes.

Pichler I, Schwienbacher C, Zanon A, ..., Hicks AA, Pramstaller PP

J. Mol. Neurosci. 49 (3) 600-605 [2013-03-00; online 2012-10-02]

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Extracting intracellular diffusive states and transition rates from single-molecule tracking data.

Persson F, Lindén M, Unoson C, Elf J

Nat. Methods 10 (3) 265-269 [2013-03-00; online 2013-02-10]

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Effects of nicotine, its metabolites and tobacco extracts on human platelet function in vitro.

Ljungberg LU, Persson K, Eriksson AC, Green H, Whiss PA

Toxicol In Vitro 27 (2) 932-938 [2013-03-00; online 2013-01-11]

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Dorsally derived spinal interneurons in locomotor circuits.

Vallstedt A, Kullander K

Ann. N. Y. Acad. Sci. 1279 (-) 32-42 [2013-03-00; online 2013-03-28]

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Determination of the obesity-associated gene variants within the entire FTO gene by ultra-deep targeted sequencing in obese and lean children.

Sällman Almén M, Rask-Andersen M, Jacobsson JA, ..., Fredriksson R, Schiöth HB

Int J Obes (Lond) 37 (3) 424-431 [2013-03-00; online 2012-04-24]

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Brain gene expression differences are associated with abnormal tail biting behavior in pigs.

Brunberg E, Jensen P, Isaksson A, Keeling LJ

Genes Brain Behav. 12 (2) 275-281 [2013-03-00; online 2012-12-07]

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Anisotropic isolation by distance: the main orientations of human genetic differentiation.

Jay F, Sjödin P, Jakobsson M, Blum MG

Mol. Biol. Evol. 30 (3) 513-525 [2013-03-00; online 2012-11-20]

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A novel microdeletion syndrome at 9q21.13 characterised by mental retardation, speech delay, epilepsy and characteristic facial features.

Boudry-Labis E, Demeer B, Le Caignec C, ..., Love DR, Andrieux J

Eur J Med Genet 56 (3) 163-170 [2013-03-00; online 2012-12-29]

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A gene transfer agent and a dynamic repertoire of secretion systems hold the keys to the explosive radiation of the emerging pathogen Bartonella.

Guy L, Nystedt B, Toft C, ..., Eriksson AS, Andersson SG

PLoS Genet 9 (3) e1003393 [2013-03-00; online 2013-03-28]

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Replication stress links structural and numerical cancer chromosomal instability.

Burrell RA, McClelland SE, Endesfelder D, ..., Tomlinson IP, Swanton C

Nature 494 (7438) 492-496 [2013-02-28; online 2013-03-01]

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Epigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates

Long HK, Sims D, Heger A, ..., Ponting CP, Klose RJ

Elife 2 (-) - [2013-02-26; online 2013-02-26]

Claudia Kutter SciLifeLab Fellow

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Origin and evolution of medium chain alcohol dehydrogenases.

Jörnvall H, Hedlund J, Bergman T, ..., Cederlund E, Persson B

Chem. Biol. Interact. 202 (1-3) 91-96 [2013-02-25; online 2012-11-28]

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Classification and nomenclature of the superfamily of short-chain dehydrogenases/reductases (SDRs).

Persson B, Kallberg Y

Chem. Biol. Interact. 202 (1-3) 111-115 [2013-02-25; online 2012-11-29]

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Analysis of mammalian alcohol dehydrogenase 5 (ADH5): characterisation of rat ADH5 with comparisons to the corresponding human variant.

Ostberg LJ, Strömberg P, Hedberg JJ, Persson B, Höög JO

Chem. Biol. Interact. 202 (1-3) 97-103 [2013-02-25; online 2012-11-15]

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Charge pair interactions in transmembrane helices and turn propensity of the connecting sequence promote helical hairpin insertion.

Bañó-Polo M, Martínez-Gil L, Wallner B, ..., Elofsson A, Mingarro I

J. Mol. Biol. 425 (4) 830-840 [2013-02-22; online 2012-12-07]

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Classification of human natural killer cells based on migration behavior and cytotoxic response.

Vanherberghen B, Olofsson PE, Forslund E, ..., Mehr R, Önfelt B

Blood 121 (8) 1326-1334 [2013-02-21; online 2013-01-03]

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Genetic susceptibility to non-necrotizing erysipelas/cellulitis.

Hannula-Jouppi K, Massinen S, Siljander T, ..., Syrjänen J, Kere J

PLoS ONE 8 (2) e56225 [2013-02-20; online 2013-02-20]

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Gold-catalyzed addition of N-hydroxy heterocycles to alkynes and subsequent 3,3-sigmatropic rearrangement.

Kumar M, Scobie M, Mashuta MS, Hammond GB, Xu B

Org. Lett. 15 (4) 724-727 [2013-02-15; online 2013-02-04]

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Dislocation by the m-AAA protease increases the threshold hydrophobicity for retention of transmembrane helices in the inner membrane of yeast mitochondria.

Botelho SC, Tatsuta T, von Heijne G, Kim H

J. Biol. Chem. 288 (7) 4792-4798 [2013-02-15; online 2013-01-02]

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High-throughput hyperdimensional vertebrate phenotyping.

Pardo-Martin C, Allalou A, Medina J, ..., Wählby C, Fatih Yanik M

Nat Commun 4 (-) 1467 [2013-02-14; online 2013-02-14]

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Reactive oxygen production induced by near-infrared radiation in three strains of the Chl d-containing cyanobacterium Acaryochloris marina.

Behrendt L, Staal M, Cristescu SM, ..., Larkum AW, Kühl M

F1000Res 2 (-) 44 [2013-02-13; online 2013-02-13]

Lars Behrendt SciLifeLab Fellow

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Insights into the evolution of Darwin's finches from comparative analysis of the Geospiza magnirostris genome sequence.

Rands CM, Darling A, Fujita M, ..., Abzhanov A, Ponting CP

BMC Genomics 14 (-) 95 [2013-02-12; online 2013-02-12]

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Complex inheritance of melanoma and pigmentation of coat and skin in Grey horses.

Curik I, Druml T, Seltenhammer M, ..., Andersson L, Sölkner J

PLoS Genet 9 (2) e1003248 [2013-02-07; online 2013-02-07]

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Specific inhibition of caspase-3 by a competitive DARPin: molecular mimicry between native and designed inhibitors.

Schroeder T, Barandun J, Flütsch A, ..., Mittl PR, Grütter MG

Structure 21 (2) 277-289 [2013-02-05; online 2013-01-17]

Jonas Barandun SciLifeLab Fellow

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Proton Uptake and pKa Changes in the Uncoupled Asn139Cys Variant of Cytochrome c Oxidase

Johansson AL, Carlsson J, Högbom M, ..., Gennis RB, Brzezinski P

Biochemistry 52 (5) 827-836 [2013-02-05; online 2013-01-25]

Jens Carlsson SciLifeLab Fellow

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High-throughput gene expression analysis at the level of single proteins using a microfluidic turbidostat and automated cell tracking.

Ullman G, Wallden M, Marklund EG, ..., Razinkov I, Elf J

Philos. Trans. R. Soc. Lond., B, Biol. Sci. 368 (1611) 20120025 [2013-02-05; online 2012-12-24]

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From archaeon to eukaryote: the evolutionary dark ages of the eukaryotic cell.

Martijn J, Ettema TJ

Biochem. Soc. Trans. 41 (1) 451-457 [2013-02-01; online 2013-01-30]

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A novel prefractionation method combining protein and peptide isoelectric focusing in immobilized pH gradient strips.

Pernemalm M, Lehtiö J

J. Proteome Res. 12 (2) 1014-1019 [2013-02-01; online 2012-12-24]

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β-Cell mass imaging with DTBZ positron emission tomography: is it possible?

Blomberg BA, Eriksson O, Saboury B, Alavi A

Molecular imaging and biology 15 (1) 1-2 [2013-02-00; online 2012-09-18]

Olof Eriksson SciLifeLab Fellow

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The relationship between F(ST) and the frequency of the most frequent allele.

Jakobsson M, Edge MD, Rosenberg NA

Genetics 193 (2) 515-528 [2013-02-00; online 2012-11-19]

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Olfactory receptor 51E1 protein as a potential novel tissue biomarker for small intestine neuroendocrine carcinomas.

Cui T, Tsolakis AV, Li SC, ..., Öberg K, Giandomenico V

Eur. J. Endocrinol. 168 (2) 253-261 [2013-02-00; online 2013-01-17]

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Nucleosome mobilization by ISW2 requires the concerted action of the ATPase and SLIDE domains

Hota SK, Bhardwaj SK, Deindl S, ..., Zhuang X, Bartholomew B

Nat Struct Mol Biol 20 (2) 222-229 [2013-02-00; online 2013-01-20]

SciLifeLab Fellow Sebastian Deindl

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In vitro and in vivo activities of 2-aminopyrazines and 2-aminopyridines in experimental models of human African trypanosomiasis.

Vodnala SK, Lundbäck T, Sjöberg B, ..., Rottenberg ME, Hammarström LG

Antimicrob. Agents Chemother. 57 (2) 1012-1018 [2013-02-00; online 2012-12-17]

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In situ detection of individual mRNA molecules and protein complexes or post-translational modifications using padlock probes combined with the in situ proximity ligation assay.

Weibrecht I, Lundin E, Kiflemariam S, ..., Nilsson M, Söderberg O

Nat Protoc 8 (2) 355-372 [2013-02-00; online 2013-01-24]

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Helicobacter pylori and the gastric microbiota.

Engstrand L, Lindberg M

Best Pract Res Clin Gastroenterol 27 (1) 39-45 [2013-02-00; online 2013-06-19]

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Genotoxicity of alcohol is linked to DNA replication-associated damage and homologous recombination repair.

Kotova N, Vare D, Schultz N, ..., Helleday T, Jenssen D

Carcinogenesis 34 (2) 325-330 [2013-02-00; online 2012-11-03]

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Free fatty acid determination in plasma by GC-MS after conversion to Weinreb amides.

Ubhayasekera SJ, Staaf J, Forslund A, Bergsten P, Bergquist J

Anal Bioanal Chem 405 (6) 1929-1935 [2013-02-00; online 2013-01-11]

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Exome sequencing of prostate cancer supports the hypothesis of independent tumour origins.

Lindberg J, Klevebring D, Liu W, ..., Egevad L, Grönberg H

Eur. Urol. 63 (2) 347-353 [2013-02-00; online 2012-03-31]

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Early cone setting in Picea abies acrocona is associated with increased transcriptional activity of a MADS box transcription factor.

Uddenberg D, Reimegård J, Clapham D, ..., Emanuelsson O, Sundström JF

Plant Physiol. 161 (2) 813-823 [2013-02-00; online 2012-12-07]

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Challenges and strategies in transcriptome assembly and differential gene expression quantification. A comprehensive in silico assessment of RNA-seq experiments.

Vijay N, Poelstra JW, Künstner A, Wolf JB

Mol. Ecol. 22 (3) 620-634 [2013-02-00; online 2012-09-24]

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Adaptive filtering for enhancement of the osteocyte cell network in 3D microtomography images

Pacureanu A, Larrue A, Langer M, ..., Lafage-Proust MH, Peyrin F

IRBM 34 (1) 48-52 [2013-02-00; online 2013-02-00]

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A versatile genome-scale PCR-based pipeline for high-definition DNA FISH

Bienko M, Crosetto N, Teytelman L, ..., Itzkovitz S, van Oudenaarden A

Nat Methods 10 (2) 122-124 [2013-02-00; online 2012-12-23]

Magda Bienko SciLifeLab Fellow

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A combined proteomic and transcriptomic approach shows diverging molecular mechanisms in thoracic aortic aneurysm development in patients with tricuspid- and bicuspid aortic valve.

Kjellqvist S, Maleki S, Olsson T, ..., Franco-Cereceda A, Eriksson P

Mol. Cell Proteomics 12 (2) 407-425 [2013-02-00; online 2012-11-26]

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Loci associated with N-glycosylation of human immunoglobulin G show pleiotropy with autoimmune diseases and haematological cancers.

Lauc G, Huffman JE, Pučić M, ..., Campbell H, Rudan I

PLoS Genet 9 (1) e1003225 [2013-01-31; online 2013-01-31]

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Increased level of myeloid-derived suppressor cells, programmed death receptor ligand 1/programmed death receptor 1, and soluble CD25 in Sokal high risk chronic myeloid leukemia.

Christiansson L, Söderlund S, Svensson E, ..., Olsson-Strömberg U, Loskog AS

PLoS ONE 8 (1) e55818 [2013-01-31; online 2013-01-31]

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Workshop on laboratory protocol standards for the Molecular Methods Database.

Klingström T, Soldatova L, Stevens R, ..., Landegren U, Bongcam-Rudloff E

N Biotechnol 30 (2) 109-113 [2013-01-25; online 2012-06-02]

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Protein tag-mediated conjugation of oligonucleotides to recombinant affinity binders for proximity ligation.

Gu GJ, Friedman M, Jost C, ..., Landegren U, Söderberg O

N Biotechnol 30 (2) 144-152 [2013-01-25; online 2012-06-02]

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Multiplex protein detection with DNA readout via mass spectrometry.

Flanigon J, Kamali-Moghaddam M, Burbulis I, ..., Landegren U, Cantor C

N Biotechnol 30 (2) 153-158 [2013-01-25; online 2012-11-28]

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Adenovirus serotype 5 vectors with Tat-PTD modified hexon and serotype 35 fiber show greatly enhanced transduction capacity of primary cell cultures.

Yu D, Jin C, Ramachandran M, ..., Fan X, Essand M

PLoS ONE 8 (1) e54952 [2013-01-25; online 2013-01-25]

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A specific and essential role for Na,K-ATPase α3 in neurons co-expressing α1 and α3.

Azarias G, Kruusmägi M, Connor S, ..., Broberger C, Aperia A

J. Biol. Chem. 288 (4) 2734-2743 [2013-01-25; online 2012-11-29]

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Target selectivity of feedforward inhibition by striatal fast-spiking interneurons.

Szydlowski SN, Pollak Dorocic I, Planert H, ..., Meletis K, Silberberg G

J. Neurosci. 33 (4) 1678-1683 [2013-01-23; online 2013-01-25]

Iskra Pollak Dorocic SciLifeLab Fellow

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Statistical assessment of crosstalk enrichment between gene groups in biological networks.

McCormack T, Frings O, Alexeyenko A, Sonnhammer EL

PLoS ONE 8 (1) e54945 [2013-01-23; online 2013-01-23]

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Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes.

Eckalbar WL, Hutchins ED, Markov GJ, ..., Huentelman MJ, Kusumi K

BMC Genomics 14 (-) 49 [2013-01-23; online 2013-01-23]

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DNA methylation in the Neuropeptide S Receptor 1 (NPSR1) promoter in relation to asthma and environmental factors.

Reinius LE, Gref A, Sääf A, ..., Söderhäll C, Kere J

PLoS ONE 8 (1) e53877 [2013-01-23; online 2013-01-23]

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Unveiling Distribution Patterns of Freshwater Phytoplankton by a Next Generation Sequencing Based Approach

Eiler A, Drakare S, Bertilsson S, ..., Znachor P, Lindström ES

PLoS ONE 8 (1) e53516 [2013-01-22; online 2013-01-22]

Sari Peura SciLifeLab Fellow

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Genomic insights into the atopic eczema-associated skin commensal yeast Malassezia sympodialis.

Gioti A, Nystedt B, Li W, ..., Heitman J, Scheynius A

MBio 4 (1) e00572-e00512 [2013-01-22; online 2013-01-22]

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A mouse mammary epithelial cell line permissive for highly efficient human adenovirus growth.

Wu C, Öberg D, Rashid A, ..., Akusjärvi G, Svensson C

Virology 435 (2) 363-371 [2013-01-20; online 2012-11-17]

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Intraperitoneal influx of neutrophils in response to IL-33 is mast cell-dependent.

Enoksson M, Möller-Westerberg C, Wicher G, ..., Lunderius-Andersson C, Nilsson G

Blood 121 (3) 530-536 [2013-01-17; online 2012-10-23]

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Platelet-derived growth factor-induced Akt phosphorylation requires mTOR/Rictor and phospholipase C-γ1, whereas S6 phosphorylation depends on mTOR/Raptor and phospholipase D.

Razmara M, Heldin CH, Lennartsson J

Cell Commun. Signal 11 (1) 3 [2013-01-11; online 2013-01-11]

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The conserved phenylalanine in the K+ channel voltage-sensor domain creates a barrier with unidirectional effects.

Schwaiger CS, Liin SI, Elinder F, Lindahl E

Biophys. J. 104 (1) 75-84 [2013-01-08; online 2013-01-08]

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Exome RNA sequencing reveals rare and novel alternative transcripts.

Halvardson J, Zaghlool A, Feuk L

Nucleic Acids Res. 41 (1) e6 [2013-01-07; online 2012-08-31]

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RNA deep sequencing as a tool for selection of cell lines for systematic subcellular localization of all human proteins.

Danielsson F, Wiking M, Mahdessian D, ..., Uhlén M, Lundberg E

J. Proteome Res. 12 (1) 299-307 [2013-01-04; online 2012-12-20]

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A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17.

Liu S, Im H, Bairoch A, ..., Beavis RC, Hancock WS

J. Proteome Res. 12 (1) 45-57 [2013-01-04; online 2012-12-21]

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Self-reported family socioeconomic status, the 5-HTTLPR genotype, and delinquent behavior in a community-based adolescent population.

Aslund C, Comasco E, Nordquist N, ..., Oreland L, Nilsson KW

Aggress Behav 39 (1) 52-63 [2013-01-00; online 2012-09-14]

Erika Comasco SciLifeLab Fellow

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Possible positive selection for an arsenic-protective haplotype in humans.

Schlebusch CM, Lewis CM, Vahter M, ..., Jakobsson M, Broberg K

Environ. Health Perspect. 121 (1) 53-58 [2013-01-00; online 2012-10-16]

Affiliated researcher

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Omega-3 and omega-6 fatty acids are more efficiently synthesized in populations having a high frequency of the derived FADS-haplotype

Enroth S, Ameur A, Johansson Å, Gyllensten U

Int J Circumpolar Health 72 (1) 22447 [2013-01-00; online 2013-08-05]

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Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton.

Garcia SL, McMahon KD, Martinez-Garcia M, ..., Woyke T, Warnecke F

ISME J 7 (1) 137-147 [2013-01-00; online 2012-07-19]

Sarahi Garcia SciLifeLab Fellow

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MHC variability supports dog domestication from a large number of wolves: high diversity in Asia.

Niskanen AK, Hagström E, Lohi H, ..., Aspi J, Savolainen P

Heredity (Edinb) 110 (1) 80-85 [2013-01-00; online 2012-10-17]

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Latent Regulatory Potential of Human-Specific Repetitive Elements

Ward MC, Wilson MD, Barbosa-Morais NL, ..., Blencowe BJ, Odom DT

Molecular Cell 49 (2) 262-272 [2013-01-00; online 2013-01-00]

Claudia Kutter SciLifeLab Fellow

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Improving the osteogenic potential of BMP-2 with hyaluronic acid hydrogel modified with integrin-specific fibronectin fragment.

Kisiel M, Martino MM, Ventura M, ..., Hilborn J, Ossipov DA

Biomaterials 34 (3) 704-712 [2013-01-00; online 2012-10-24]

Affiliated researcher

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ISWI Remodelers Slide Nucleosomes with Coordinated Multi-Base-Pair Entry Steps and Single-Base-Pair Exit Steps

Deindl S, Hwang WL, Hota SK, ..., Bartholomew B, Zhuang X

Cell 152 (3) 442-452 [2013-01-00; online 2013-01-00]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

DNA damage response in peritumoral regions of oesophageal cancer microenvironment.

He H, Tian D, Guo J, ..., Su M, Ying S

Carcinogenesis 34 (1) 139-145 [2013-01-00; online 2012-10-01]

Affiliated researcher

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Aberrant association between vascular endothelial growth factor receptor-2 and VE-cadherin in response to vascular endothelial growth factor-a in Shb-deficient lung endothelial cells.

Zang G, Christoffersson G, Tian G, ..., Tengholm A, Welsh M

Cell. Signal. 25 (1) 85-92 [2013-01-00; online 2012-09-18]

Gustaf Christoffersson SciLifeLab Fellow

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Triazolopyrimidinones as γ-secretase modulators: structure–activity relationship, modulator profile, and in vivo profiling

Yngve U, Paulsen K, Macsari I, ..., Klintenberg R, Arvidsson PI

Med. Chem. Commun. 4 (2) 422 [2013-00-00; online 2013-00-00]

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A new concise synthesis of 2,3-dihydroquinazolin-4(1H)-one derivatives

Desroses M, Scobie M, Helleday T

New J. Chem. 37 (11) 3595 [2013-00-00; online 2013-00-00]

Affiliated researcher

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100 Years of Vitamins: The Science of Formulation is the Key to Functionality

Teleki A, Hitzfeld A, Eggersdorfer M

KONA 30 (0) 144-163 [2013-00-00; online 2013-00-00]

Alexandra Teleki SciLifeLab Fellow

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rsEGFP2 enables fast RESOLFT nanoscopy of living cells.

Grotjohann T, Testa I, Reuss M, ..., Hell SW, Jakobs S

Elife 1 (-) e00248 [2012-12-31; online 2012-12-31]

Affiliated researcher

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Reevaluating assembly evaluations with feature response curves: GAGE and assemblathons.

Vezzi F, Narzisi G, Mishra B

PLoS ONE 7 (12) e52210 [2012-12-28; online 2012-12-28]

Affiliated researcher

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Automated genotyping of biobank samples by multiplex amplification of insertion/deletion polymorphisms.

Mathot L, Falk-Sörqvist E, Moens L, ..., Sjöblom T, Nilsson M

PLoS ONE 7 (12) e52750 [2012-12-27; online 2012-12-27]

Affiliated researcher

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Powerful identification of cis-regulatory SNPs in human primary monocytes using allele-specific gene expression.

Almlöf JC, Lundmark P, Lundmark A, ..., Cambien F, Syvänen AC

PLoS ONE 7 (12) e52260 [2012-12-26; online 2012-12-26]

Affiliated researcher

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Network analysis of functional genomics data: application to avian sex-biased gene expression.

Frings O, Mank JE, Alexeyenko A, Sonnhammer EL

ScientificWorldJournal 2012 (-) 130491 [2012-12-23; online 2012-12-23]

Affiliated researcher

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The Evolutionary Landscape of Alternative Splicing in Vertebrate Species

Barbosa-Morais NL, Irimia M, Pan Q, ..., Frey BJ, Blencowe BJ

Science 338 (6114) 1587-1593 [2012-12-21; online 2012-12-20]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Parallel immunizations of rabbits using the same antigen yield antibodies with similar, but not identical, epitopes.

Hjelm B, Forsström B, Löfblom J, Rockberg J, Uhlén M

PLoS ONE 7 (12) e45817 [2012-12-19; online 2012-12-19]

Affiliated researcher

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Genome-wide sequencing for the identification of rearrangements associated with Tourette syndrome and obsessive-compulsive disorder.

Hooper SD, Johansson AC, Tellgren-Roth C, ..., Cavelier L, Feuk L

BMC Med. Genet. 13 (-) 123 [2012-12-19; online 2012-12-19]

Affiliated researcher

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The effect of premenstrual dysphoric disorder and menstrual cycle phase on brain activity during response inhibition.

Bannbers E, Gingnell M, Engman J, ..., Wikström J, Sundström Poromaa I

J Affect Disord 142 (1-3) 347-350 [2012-12-15; online 2012-07-27]

Erika Comasco SciLifeLab Fellow

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Dual targeting of aminoacyl-tRNA synthetases to the mitochondrion and complex plastid in chlorarachniophytes

Hirakawa Y, Burki F, Keeling PJ

Journal of Cell Science 125 (24) 6176-6184 [2012-12-15; online 2012-10-04]

Fabien Burki SciLifeLab Fellow

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Evidence for small RNAs homologous to effector-encoding genes and transposable elements in the oomycete Phytophthora infestans.

Vetukuri RR, Åsman AK, Tellgren-Roth C, ..., Whisson SC, Dixelius C

PLoS ONE 7 (12) e51399 [2012-12-14; online 2012-12-14]

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Khan TN, Klar J, Nawaz S, ..., Baig SM, Dahl N

BMC Med. Genet. 13 (-) 120 [2012-12-13; online 2012-12-13]

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Distinct modes of DNA accessibility in plant chromatin.

Shu H, Wildhaber T, Siretskiy A, Gruissem W, Hennig L

Nat Commun 3 (-) 1281 [2012-12-13; online 2012-12-13]

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A noncanonical postsynaptic transport route for a GPCR belonging to the serotonin receptor family.

Liebmann T, Kruusmägi M, Sourial-Bassillious N, ..., Brismar H, Aperia A

J. Neurosci. 32 (50) 17998-18008 [2012-12-12; online 2012-12-15]

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Visualization of custom-tailored iron oxide nanoparticles chemistry, uptake, and toxicity.

Wilkinson K, Ekstrand-Hammarström B, Ahlinder L, ..., Seisenbaeva GA, Kessler VG

Nanoscale 4 (23) 7383-7393 [2012-12-07; online 2012-10-17]

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Neumayer G, Helfricht A, Shim SY, ..., Helleday T, Nguyen MD

J. Biol. Chem. 287 (50) 42206-42222 [2012-12-07; online 2012-10-08]

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Recognizing uncertainty increases robustness and reproducibility of mass spectrometry-based protein inferences.

Serang O, Moruz L, Hoopmann MR, Käll L

J. Proteome Res. 11 (12) 5586-5591 [2012-12-07; online 2012-11-19]

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Longitudinal characterization of the brain proteomes for the tg2576 amyloid mouse model using shotgun based mass spectrometry.

Shevchenko G, Wetterhall M, Bergquist J, ..., Andersson LI, Kultima K

J. Proteome Res. 11 (12) 6159-6174 [2012-12-07; online 2012-10-30]

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Genome-wide association study for circulating levels of PAI-1 provides novel insights into its regulation.

Huang J, Sabater-Lleal M, Asselbergs FW, ..., O'Donnell CJ, Hamsten A

Blood 120 (24) 4873-4881 [2012-12-06; online 2012-09-18]

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Sonic Hedgehog-signalling patterns the developing chicken comb as revealed by exploration of the pea-comb mutation.

Boije H, Harun-Or-Rashid M, Lee YJ, ..., Andersson L, Hallböök F

PLoS ONE 7 (12) e50890 [2012-12-05; online 2012-12-05]

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MesoRD 1.0: Stochastic reaction-diffusion simulations in the microscopic limit.

Fange D, Mahmutovic A, Elf J

Bioinformatics 28 (23) 3155-3157 [2012-12-01; online 2012-10-07]

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In vitro oxidative inactivation of human presequence protease (hPreP).

Teixeira PF, Pinho CM, Branca RM, ..., Levine RL, Glaser E

Free Radic. Biol. Med. 53 (11) 2188-2195 [2012-12-01; online 2012-10-03]

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Distinct transcriptional control in major immunogenetic subsets of chronic lymphocytic leukemia exhibiting subset-biased global DNA methylation profiles.

Kanduri M, Marincevic M, Halldórsdóttir AM, ..., Stamatopoulos K, Rosenquist R

Epigenetics 7 (12) 1435-1442 [2012-12-01; online 2012-11-15]

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The toxin-antitoxin system tisB-istR1: Expression, regulation, and biological role in persister phenotypes.

Wagner EG, Unoson C

RNA Biol 9 (12) 1513-1519 [2012-12-00; online 2012-10-23]

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Regeneration-associated WNT Signaling Is Activated in Long-term Reconstituting AC133bright Acute Myeloid Leukemia Cells

Beghini A, Corlazzoli F, Del Giacco L, ..., Morra E, Cairoli R

Neoplasia 14 (12) 1236-IN45 [2012-12-00; online 2012-12-00]

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Neuroproteomic profiling of human brain tissue using multidimensional separation techniques and selective enrichment of membrane proteins.

Musunuri S, Shevchenko G, Bergquist J

Electrophoresis 33 (24) 3779-3785 [2012-12-00; online 2012-11-20]

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Multiplex epitope mapping using bacterial surface display reveals both linear and conformational epitopes

Hudson EP, Uhlen M, Rockberg J

Sci Rep 2 (1) - [2012-12-00; online 2012-10-04]

Affiliated researcher Paul Hudson SciLifeLab Fellow

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Minimally invasive mandibular bone augmentation using injectable hydrogels.

Martínez-Sanz E, Varghese OP, Kisiel M, ..., Ossipov DA, Hilborn J

J Tissue Eng Regen Med 6 Suppl 3 (-) s15-s23 [2012-12-00; online 2012-09-03]

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Lost in presumption: stochastic reactions in spatial models.

Mahmutovic A, Fange D, Berg OG, Elf J

Nat. Methods 9 (12) 1163-1166 [2012-12-00; online 2012-12-12]

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Identification of the BCAR1-CFDP1-TMEM170A locus as a determinant of carotid intima-media thickness and coronary artery disease risk.

Gertow K, Sennblad B, Strawbridge RJ, ..., Humphries SE, Hamsten A

Circ Cardiovasc Genet 5 (6) 656-665 [2012-12-00; online 2012-11-14]

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High-resolution mapping of linear antibody epitopes using ultrahigh-density peptide microarrays.

Buus S, Rockberg J, Forsström B, ..., Uhlen M, Schafer-Nielsen C

Mol. Cell Proteomics 11 (12) 1790-1800 [2012-12-00; online 2012-09-13]

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Heparan sulfate biosynthesis: regulation and variability.

Kreuger J, Kjellén L

J. Histochem. Cytochem. 60 (12) 898-907 [2012-12-00; online 2012-10-04]

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Expression patterns of 17β-hydroxysteroid dehydrogenase 14 in human tissues.

Sivik T, Vikingsson S, Gréen H, Jansson A

Horm. Metab. Res. 44 (13) 949-956 [2012-12-00; online 2012-08-03]

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Evidence of a functional estrogen receptor in parathyroid adenomas.

Haglund F, Ma R, Huss M, ..., Hartman J, Larsson C

J. Clin. Endocrinol. Metab. 97 (12) 4631-4639 [2012-12-00; online 2012-09-28]

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An emerging consensus on voltage-dependent gating from computational modeling and molecular dynamics simulations.

Vargas E, Yarov-Yarovoy V, Khalili-Araghi F, ..., Bezanilla F, Roux B

J. Gen. Physiol. 140 (6) 587-594 [2012-12-00; online 2012-11-28]

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Algal genomes reveal evolutionary mosaicism and the fate of nucleomorphs

Curtis BA, Tanifuji G, Burki F, ..., Grigoriev IV, Archibald JM

Nature 492 (7427) 59-65 [2012-12-00; online 2012-11-28]

Fabien Burki SciLifeLab Fellow

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The pupylation pathway and its role in mycobacteria.

Barandun J, Delley CL, Weber-Ban E

BMC Biol. 10 (-) 95 [2012-11-30; online 2012-11-30]

Jonas Barandun SciLifeLab Fellow

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Microenvironmental Ecology of the Chlorophyll b-Containing Symbiotic Cyanobacterium Prochloron in the Didemnid Ascidian Lissoclinum patella.

Kühl M, Behrendt L, Trampe E, ..., Klimant I, Larkum AW

Front Microbiol 3 (-) 402 [2012-11-30; online 2012-11-30]

Lars Behrendt SciLifeLab Fellow

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Discovery of AZD3839, a potent and selective BACE1 inhibitor clinical candidate for the treatment of Alzheimer disease.

Jeppsson F, Eketjäll S, Janson J, ..., Bueters T, Fälting J

J. Biol. Chem. 287 (49) 41245-41257 [2012-11-30; online 2012-10-09]

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Automated analysis and reannotation of subcellular locations in confocal images from the Human Protein Atlas.

Li J, Newberg JY, Uhlén M, Lundberg E, Murphy RF

PLoS ONE 7 (11) e50514 [2012-11-30; online 2012-11-30]

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VEGF-A recruits a proangiogenic MMP-9-delivering neutrophil subset that induces angiogenesis in transplanted hypoxic tissue.

Christoffersson G, Vågesjö E, Vandooren J, ..., Opdenakker G, Phillipson M

Blood 120 (23) 4653-4662 [2012-11-29; online 2012-09-10]

Gustaf Christoffersson SciLifeLab Fellow

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The evolution of vertebrate somatostatin receptors and their gene regions involves extensive chromosomal rearrangements.

Ocampo Daza D, Sundström G, Bergqvist CA, Larhammar D

BMC Evol Biol BMC Evolutionary Biology 12 (-) 231 [2012-11-29; online 2012-11-29]

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The dyslexia candidate locus on 2p12 is associated with general cognitive ability and white matter structure.

Scerri TS, Darki F, Newbury DF, ..., Klingberg T, Paracchini S

PLoS ONE 7 (11) e50321 [2012-11-28; online 2012-11-28]

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Estimating microtubule distributions from 2D immunofluorescence microscopy images reveals differences among human cultured cell lines.

Li J, Shariff A, Wiking M, ..., Rohde GK, Murphy RF

PLoS ONE 7 (11) e50292 [2012-11-28; online 2012-11-28]

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Strong signatures of selection in the domestic pig genome.

Rubin CJ, Megens HJ, Martinez Barrio A, ..., Groenen MA, Andersson L

Proc. Natl. Acad. Sci. U.S.A. 109 (48) 19529-19536 [2012-11-27; online 2012-11-14]

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Centrosomal localization of the psoriasis candidate gene product, CCHCR1, supports a role in cytoskeletal organization.

Tervaniemi MH, Siitonen HA, Söderhäll C, ..., Kere J, Elomaa O

PLoS ONE 7 (11) e49920 [2012-11-26; online 2012-11-26]

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Serine 192 in the tiny RS repeat of the adenoviral L4-33K splicing enhancer protein is essential for function and reorganization of the protein to the periphery of viral replication centers.

Östberg S, Törmänen Persson H, Akusjärvi G

Virology 433 (2) 273-281 [2012-11-25; online 2012-09-01]

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Inertial microfluidics in parallel channels for high-throughput applications.

Hansson J, Karlsson JM, Haraldsson T, ..., van der Wijngaart W, Russom A

Lab Chip 12 (22) 4644-4650 [2012-11-21; online 2012-08-30]

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The plant short-chain dehydrogenase (SDR) superfamily: genome-wide inventory and diversification patterns.

Moummou H, Kallberg Y, Tonfack LB, Persson B, van der Rest B

BMC Plant Biol. 12 (-) 219 [2012-11-20; online 2012-11-20]

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Semi-physiologically based pharmacokinetic modeling of paclitaxel metabolism and in silico-based study of the dynamic sensitivities in pathway kinetics.

Fransson MN, Brugård J, Aronsson P, Gréen H

Eur J Pharm Sci 47 (4) 759-767 [2012-11-20; online 2012-08-15]

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Population-scale sequencing reveals genetic differentiation due to local adaptation in Atlantic herring.

Lamichhaney S, Martinez Barrio A, Rafati N, ..., Ryman N, Andersson L

Proc. Natl. Acad. Sci. U.S.A. 109 (47) 19345-19350 [2012-11-20; online 2012-11-07]

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Gating pore currents and the resting state of Nav1.4 voltage sensor domains

Gosselin-Badaroudine P, Delemotte L, Moreau A, Klein ML, Chahine M

Proceedings of the National Academy of Sciences 109 (47) 19250-19255 [2012-11-20; online 2012-11-07]

Lucie Delemotte SciLifeLab Fellow

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Comprehensive analysis of the genome transcriptome and proteome landscapes of three tumor cell lines.

Akan P, Alexeyenko A, Costea PI, ..., Uhlén M, Lundeberg J

Genome Med 4 (11) 86 [2012-11-18; online 2012-11-18]

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CD99 is a novel prognostic stromal marker in non-small cell lung cancer.

Edlund K, Lindskog C, Saito A, ..., Ostman A, Micke P

Int. J. Cancer 131 (10) 2264-2273 [2012-11-15; online 2012-04-24]

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Analyses of pig genomes provide insight into porcine demography and evolution.

Groenen MA, Archibald AL, Uenishi H, ..., Churcher C, Schook LB

Nature 491 (7424) 393-398 [2012-11-15; online 2012-11-16]

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Production of biopharmaceutical proteins by yeast: advances through metabolic engineering.

Nielsen J

Bioengineered 4 (4) 207-211 [2012-11-12; online 2012-11-12]

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The phosphoproteome of the adenovirus type 2 virion.

Bergström Lind S, Artemenko KA, Elfineh L, ..., Bergquist J, Pettersson U

Virology 433 (1) 253-261 [2012-11-10; online 2012-08-28]

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Targeted transcript profiling by sequencing.

Zajac P, Ahmadian A

Sci Rep 2 (-) 821 [2012-11-08; online 2012-11-08]

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Library preparation and multiplex capture for massive parallel sequencing applications made efficient and easy.

Neiman M, Sundling S, Grönberg H, ..., Lindberg J, Klevebring D

PLoS ONE 7 (11) e48616 [2012-11-05; online 2012-11-05]

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A cross-validation scheme for machine learning algorithms in shotgun proteomics.

Granholm V, Noble WS, Käll L

BMC Bioinformatics 13 Suppl 16 (-) S3 [2012-11-05; online 2012-11-05]

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Glycosylatable GFP as a compartment-specific membrane topology reporter.

Lee H, Min J, von Heijne G, Kim H

Biochem. Biophys. Res. Commun. 427 (4) 780-784 [2012-11-02; online 2012-10-06]

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Selective detection of bacterial layers with terahertz plasmonic antennas.

Berrier A, Schaafsma MC, Nonglaton G, Bergquist J, Rivas JG

Biomed Opt Express 3 (11) 2937-2949 [2012-11-01; online 2012-10-23]

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Expression patterns of the immunomodulatory enzyme arginase 1 in blood, lymph nodes and tumor tissue of early-stage breast cancer patients.

de Boniface J, Mao Y, Schmidt-Mende J, Kiessling R, Poschke I

Oncoimmunology 1 (8) 1305-1312 [2012-11-01; online 2012-12-18]

SciLifeLab Fellow Yumeng Mao

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Comparative analysis of RNA families reveals distinct repertoires for each domain of life.

Hoeppner MP, Gardner PP, Poole AM

PLoS Comput Biol 8 (11) e1002752 [2012-11-01; online 2012-11-01]

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Tumour suppressor p16(INK4a) - anoikis-favouring decrease in N/O-glycan/cell surface sialylation by down-regulation of enzymes in sialic acid biosynthesis in tandem in a pancreatic carcinoma model.

Amano M, Eriksson H, Manning JC, ..., Lehtiö J, Gabius HJ

FEBS J. 279 (21) 4062-4080 [2012-11-00; online 2012-09-05]

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The genome of the heartworm, Dirofilaria immitis, reveals drug and vaccine targets.

Godel C, Kumar S, Koutsovoulos G, ..., Blaxter M, Mäser P

FASEB J. 26 (11) 4650-4661 [2012-11-00; online 2012-08-13]

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OLM interneurons differentially modulate CA3 and entorhinal inputs to hippocampal CA1 neurons.

Leão RN, Mikulovic S, Leão KE, ..., Tort AB, Kullander K

Nat. Neurosci. 15 (11) 1524-1530 [2012-11-00; online 2012-10-07]

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Mammalian SEPT9 isoforms direct microtubule-dependent arrangements of septin core heteromers

Sellin ME, Stenmark S, Gullberg M

MBoC 23 (21) 4242-4255 [2012-11-00; online 2012-11-00]

Mikael Sellin SciLifeLab Fellow

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Homologous recombination mediates S-phase-dependent radioresistance in cells deficient in DNA polymerase eta.

Nicolay NH, Carter R, Hatch SB, ..., Helleday T, Sharma RA

Carcinogenesis 33 (11) 2026-2034 [2012-11-00; online 2012-07-20]

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DAXX envelops a histone H3.3–H4 dimer for H3.3-specific recognition

Elsässer SJ, Huang H, Lewis PW, ..., Allis CD, Patel DJ

Nature 491 (7425) 560-565 [2012-11-00; online 2012-10-17]

SciLifeLab Fellow Simon Elsässer

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Biological aspects of postpartum depression.

Skalkidou A, Hellgren C, Comasco E, Sylvén S, Sundström Poromaa I

Womens Health (Lond) 8 (6) 659-672 [2012-11-00; online 2012-11-28]

Erika Comasco SciLifeLab Fellow

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Bacterial community composition in the water column of a lake formed by a former uranium open pit mine.

Edberg F, Andersson AF, Holmström SJ

Microb. Ecol. 64 (4) 870-880 [2012-11-00; online 2012-05-24]

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The somatostatin analogue octreotide inhibits growth of small intestine neuroendocrine tumour cells.

Li SC, Martijn C, Cui T, ..., Öberg K, Giandomenico V

PLoS ONE 7 (10) e48411 [2012-10-31; online 2012-10-31]

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Comparison of total and cytoplasmic mRNA reveals global regulation by nuclear retention and miRNAs.

Solnestam BW, Stranneheim H, Hällman J, ..., Lundeberg J, Akan P

BMC Genomics 13 (-) 574 [2012-10-30; online 2012-10-30]

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Secretagogin is expressed in sensory CGRP neurons and in spinal cord of mouse and complements other calcium-binding proteins, with a note on rat and human.

Shi TJ, Xiang Q, Zhang MD, ..., Harkany T, Hökfelt T

Mol Pain 8 (-) 80 [2012-10-29; online 2012-10-29]

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Novel genes and pathways modulated by syndecan-1: implications for the proliferation and cell-cycle regulation of malignant mesothelioma cells.

Szatmári T, Mundt F, Heidari-Hamedani G, ..., Hjerpe A, Dobra K

PLoS ONE 7 (10) e48091 [2012-10-29; online 2012-10-29]

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Isotope-Based Analysis of Modified tRNA Nucleosides Correlates Modification Density with Translational Efficiency

Brandmayr C, Wagner M, Brückl T, ..., Biel M, Carell T

Angewandte Chemie International Edition 51 (44) 11162-11165 [2012-10-29; online 2012-10-04]

Daniel Globisch SciLifeLab Fellow

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Molecular recognition in different environments: β-cyclodextrin dimer formation in organic solvents.

Zhang H, Tan T, Feng W, van der Spoel D

J Phys Chem B 116 (42) 12684-12693 [2012-10-25; online 2012-10-11]

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SID-5 is an endosome-associated protein required for efficient systemic RNAi in C. elegans.

Hinas A, Wright AJ, Hunter CP

Curr. Biol. 22 (20) 1938-1943 [2012-10-23; online 2012-09-13]

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DNA origami delivery system for cancer therapy with tunable release properties.

Zhao Y, Shaw A, Zeng X, ..., Nyström AM, Högberg B

ACS Nano 6 (10) 8684-8691 [2012-10-23; online 2012-09-13]

Erik Benson SciLifeLab Fellow

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The free energy barrier for arginine gating charge translation is altered by mutations in the voltage sensor domain.

Schwaiger CS, Börjesson SI, Hess B, ..., Elinder F, Lindahl E

PLoS ONE 7 (10) e45880 [2012-10-19; online 2012-10-19]

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Sustained beta-cell dysfunction but normalized islet mass in aged thrombospondin-1 deficient mice.

Drott CJ, Olerud J, Emanuelsson H, Christoffersson G, Carlsson PO

PLoS ONE 7 (10) e47451 [2012-10-19; online 2012-10-19]

Gustaf Christoffersson SciLifeLab Fellow

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Genomic variation in seven Khoe-San groups reveals adaptation and complex African history.

Schlebusch CM, Skoglund P, Sjödin P, ..., Soodyall H, Jakobsson M

Science 338 (6105) 374-379 [2012-10-19; online 2012-09-20]

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Dual Effect of Phosphatidyl (4,5)-Bisphosphate PIP2on Shaker K+Channels

Abderemane-Ali F, Es-Salah-Lamoureux Z, Delemotte L, ..., Baró I, Loussouarn G

J. Biol. Chem. 287 (43) 36158-36167 [2012-10-19; online 2012-08-29]

Lucie Delemotte SciLifeLab Fellow

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Genome-wide linkage analysis of human auditory cortical activation suggests distinct loci on chromosomes 2, 3, and 8.

Renvall H, Salmela E, Vihla M, ..., Kere J, Salmelin R

J. Neurosci. 32 (42) 14511-14518 [2012-10-17; online 2012-10-19]

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Three dyslexia susceptibility genes, DYX1C1, DCDC2, and KIAA0319, affect temporo-parietal white matter structure.

Darki F, Peyrard-Janvid M, Matsson H, Kere J, Klingberg T

Biol. Psychiatry 72 (8) 671-676 [2012-10-15; online 2012-06-09]

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A novel mutation in the Lipase H gene underlies autosomal recessive hypotrichosis and woolly hair.

Tariq M, Azhar A, Baig SM, Dahl N, Klar J

Sci Rep 2 (-) 730 [2012-10-12; online 2012-10-12]

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Multiply-primed rolling circle amplification of human papillomavirus using sequence-specific primers.

Marincevic-Zuniga Y, Gustavsson I, Gyllensten U

Virology 432 (1) 57-62 [2012-10-10; online 2012-06-26]

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Proteomic analysis reveals drug accessible cell surface N-glycoproteins of primary and established glioblastoma cell lines.

Bock T, Moest H, Omasits U, ..., Frei K, Wollscheid B

J. Proteome Res. 11 (10) 4885-4893 [2012-10-05; online 2012-08-31]

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Protein and steroid profiles in follicular fluid after ovarian hyperstimulation as potential biomarkers of IVF outcome.

Kushnir MM, Naessén T, Wanggren K, ..., Crockett DK, Bergquist J

J. Proteome Res. 11 (10) 5090-5100 [2012-10-05; online 2012-09-18]

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Molecular mechanism for the dual alcohol modulation of Cys-loop receptors.

Murail S, Howard RJ, Broemstrup T, ..., Trudell JR, Lindahl E

PLoS Comput Biol 8 (10) e1002710 [2012-10-04; online 2012-10-04]

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Tumor-induced changes in the phenotype of blood-derived and tumor-associated T cells of early stage breast cancer patients.

Poschke I, De Boniface J, Mao Y, Kiessling R

Int. J. Cancer 131 (7) 1611-1620 [2012-10-01; online 2012-01-31]

SciLifeLab Fellow Yumeng Mao

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The relationship between homologous recombination repair and the sensitivity of human epidermis to the size of daily doses over a 5-week course of breast radiotherapy.

Somaiah N, Yarnold J, Daley F, ..., Rothkamm K, Helleday T

Clin. Cancer Res. 18 (19) 5479-5488 [2012-10-01; online 2012-08-01]

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Opposing consequences of signaling through EGF family members: Escape from CTLs could be a bait for NK cells.

Kiessling R, Okita R, Mougiakakos D, ..., Mimura K, Kono K

Oncoimmunology 1 (7) 1200-1201 [2012-10-01; online 2012-11-22]

SciLifeLab Fellow Yumeng Mao

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Low values of 5-hydroxymethylcytosine (5hmC), the “sixth base,” are associated with anaplasia in human brain tumors

Kraus TFJ, Globisch D, Wagner M, ..., Carell T, Kretzschmar HA

Int. J. Cancer 131 (7) 1577-1590 [2012-10-01; online 2012-03-02]

Daniel Globisch SciLifeLab Fellow

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Molecular-Level Characterization of Lipid Membrane Electroporation using Linearly Rising Current

Kramar P, Delemotte L, Maček Lebar A, ..., Tarek M, Miklavčič D

J Membrane Biol 245 (10) 651-659 [2012-10-00; online 2012-08-11]

Lucie Delemotte SciLifeLab Fellow

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MicroRNAs in Amoebozoa: deep sequencing of the small RNA population in the social amoeba Dictyostelium discoideum reveals developmentally regulated microRNAs.

Avesson L, Reimegård J, Wagner EG, Söderbom F

RNA 18 (10) 1771-1782 [2012-10-00; online 2012-08-08]

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Induction of epithelial-mesenchymal transition by transforming growth factor β.

Moustakas A, Heldin CH

Semin. Cancer Biol. 22 (5-6) 446-454 [2012-10-00; online 2012-04-23]

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Genome-wide analyses of recombination suggest that Giardia intestinalis assemblages represent different species.

Xu F, Jerlström-Hultqvist J, Andersson JO

Mol. Biol. Evol. 29 (10) 2895-2898 [2012-10-00; online 2012-04-02]

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Expansion of transducin subunit gene families in early vertebrate tetraploidizations.

Lagman D, Sundström G, Ocampo Daza D, Abalo XM, Larhammar D

Genomics 100 (4) 203-211 [2012-10-00; online 2012-07-17]

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Chemosensory proteins, major salivary factors in caterpillar mandibular glands.

Celorio-Mancera Mde L, Sundmalm SM, Vogel H, ..., Zubarev RA, Janz N

Insect Biochem. Mol. Biol. 42 (10) 796-805 [2012-10-00; online 2012-08-04]

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Application of split-green fluorescent protein for topology mapping membrane proteins in Escherichia coli.

Toddo S, Söderström B, Palombo I, ..., Nørholm MH, Daley DO

Protein Sci. 21 (10) 1571-1576 [2012-10-00; online 2012-08-21]

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Alcohol consumption among pregnant women in a Swedish sample and its effects on the newborn outcomes.

Comasco E, Hallberg G, Helander A, Oreland L, Sundelin-Wahlsten V

Alcohol Clin Exp Res 36 (10) 1779-1786 [2012-10-00; online 2012-04-06]

Erika Comasco SciLifeLab Fellow

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A biphasic pulling force acts on transmembrane helices during translocon-mediated membrane integration.

Ismail N, Hedman R, Schiller N, von Heijne G

Nat. Struct. Mol. Biol. 19 (10) 1018-1022 [2012-10-00; online 2012-09-23]

Affiliated researcher

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On the roles and regulation of chondroitin sulfate and heparan sulfate in zebrafish pharyngeal cartilage morphogenesis.

Holmborn K, Habicher J, Kasza Z, ..., Kreuger J, Ledin J

J. Biol. Chem. 287 (40) 33905-33916 [2012-09-28; online 2012-08-06]

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Gene expression profiles in paired gingival biopsies from periodontitis-affected and healthy tissues revealed by massively parallel sequencing.

Davanian H, Stranneheim H, Båge T, ..., Lundeberg J, Yucel-Lindberg T

PLoS ONE 7 (9) e46440 [2012-09-28; online 2012-09-28]

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Critical assessment of rhBMP-2 mediated bone induction: an in vitro and in vivo evaluation.

Kisiel M, Ventura M, Oommen OP, ..., Hilborn J, Varghese OP

J Control Release 162 (3) 646-653 [2012-09-28; online 2012-08-10]

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T cells engineered with a T cell receptor against the prostate antigen TARP specifically kill HLA-A2+ prostate and breast cancer cells.

Hillerdal V, Nilsson B, Carlsson B, Eriksson F, Essand M

Proc. Natl. Acad. Sci. U.S.A. 109 (39) 15877-15881 [2012-09-25; online 2012-09-10]

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Elevated MARK2-dependent phosphorylation of Tau in Alzheimer's disease.

Gu GJ, Wu D, Lund H, ..., Landegren U, Kamali-Moghaddam M

J. Alzheimers Dis. 33 (3) 699-713 [2012-09-25; online 2012-09-25]

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Expression of the global regulator SATB1 is an independent factor of poor prognosis in high grade epithelial ovarian cancer.

Nodin B, Hedner C, Uhlén M, Jirström K

J Ovarian Res 5 (1) 24 [2012-09-19; online 2012-09-19]

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Total IgE and allergen-specific IgE and IgG antibody levels in sera of atopic dermatitis affected and non-affected Labrador- and Golden retrievers.

Lauber B, Molitor V, Meury S, ..., Roosje P, Marti E

Vet. Immunol. Immunopathol. 149 (1-2) 112-118 [2012-09-15; online 2012-05-29]

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Molecular tools for companion diagnostics.

Zieba A, Grannas K, Söderberg O, ..., Nilsson M, Landegren U

N Biotechnol 29 (6) 634-640 [2012-09-15; online 2012-05-24]

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Comparative genomics of eukaryotic small nucleolar RNAs reveals deep evolutionary ancestry amidst ongoing intragenomic mobility.

Hoeppner MP, Poole AM

BMC Evol Biol BMC Evolutionary Biology 12 (-) 183 [2012-09-15; online 2012-09-15]

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Structure–Activity Relationships and Molecular Modeling of 1,2,4-Triazoles as Adenosine Receptor Antagonists

Carlsson J, Tosh DK, Phan K, Gao ZG, Jacobson KA

ACS Med. Chem. Lett. 3 (9) 715-720 [2012-09-13; online 2012-08-07]

Jens Carlsson SciLifeLab Fellow

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Loss-of-heterozygosity on chromosome 19q in early-stage serous ovarian cancer is associated with recurrent disease.

Skirnisdottir I, Mayrhofer M, Rydåker M, Akerud H, Isaksson A

BMC Cancer 12 (-) 407 [2012-09-12; online 2012-09-12]

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Highly improved homopolymer aware nucleotide-protein alignments with 454 data.

Lysholm F

BMC Bioinformatics 13 (-) 230 [2012-09-12; online 2012-09-12]

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Evolutionary conservation of the ribosomal biogenesis factor Rbm19/Mrd1: implications for function.

Kallberg Y, Segerstolpe Å, Lackmann F, Persson B, Wieslander L

PLoS ONE 7 (9) e43786 [2012-09-12; online 2012-09-12]

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A tool to facilitate clinical biomarker studies--a tissue dictionary based on the Human Protein Atlas.

Kampf C, Bergman J, Oksvold P, ..., Uhlén M, Ponten F

BMC Med 10 (-) 103 [2012-09-12; online 2012-09-12]

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Network enrichment analysis: extension of gene-set enrichment analysis to gene networks.

Alexeyenko A, Lee W, Pernemalm M, ..., Lehtiö J, Pawitan Y

BMC Bioinformatics 13 (-) 226 [2012-09-11; online 2012-09-11]

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Mig6 is a sensor of EGF receptor inactivation that directly activates c-Abl to induce apoptosis during epithelial homeostasis.

Hopkins S, Linderoth E, Hantschel O, ..., Superti-Furga G, Ferby I

Dev. Cell 23 (3) 547-559 [2012-09-11; online 2012-09-15]

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Identification of candidate SNPs for drug induced toxicity from differentially expressed genes in associated tissues.

Hasmats J, Kupershmidt I, Rodríguez-Antona C, ..., Lundeberg J, Green H

Gene 506 (1) 62-68 [2012-09-10; online 2012-07-01]

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GapFiller: a de novo assembly approach to fill the gap within paired reads.

Nadalin F, Vezzi F, Policriti A

BMC Bioinformatics 13 Suppl 14 (-) S8 [2012-09-07; online 2012-09-07]

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DOI Crossref

Five simple guidelines for establishing basic authenticity and reliability of newly generated fungal ITS sequences

Nilsson RH, Tedersoo L, Abarenkov K, ..., Larsson E, Kõljalg U

MykoKeys 4 (-) 37-63 [2012-09-05; online 2012-09-05]

DDLS Fellow Johan Bengtsson-Palme

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Improved gap size estimation for scaffolding algorithms.

Sahlin K, Street N, Lundeberg J, Arvestad L

Bioinformatics 28 (17) 2215-2222 [2012-09-01; online 2012-08-28]

Affiliated researcher Kristoffer Sahlin SciLifeLab Fellow

DOI Crossref

Improved gap size estimation for scaffolding algorithms

Kristoffer S, Nathaniel S, Joakim L, Lars A

Bioinformatics 28 (17) 2215–2222 [2012-09-01]

Kristoffer Sahlin SciLifeLab Fellow

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CHK1 activity is required for continuous replication fork elongation but not stabilization of post-replicative gaps after UV irradiation.

Elvers I, Hagenkort A, Johansson F, ..., Erixon K, Helleday T

Nucleic Acids Res. 40 (17) 8440-8448 [2012-09-01; online 2012-06-29]

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Vascular adaptation to a dysfunctional endothelium as a consequence of Shb deficiency.

Christoffersson G, Zang G, Zhuang ZW, ..., Phillipson M, Welsh M

Angiogenesis 15 (3) 469-480 [2012-09-00; online 2012-05-05]

Gustaf Christoffersson SciLifeLab Fellow

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The evolution of filamin-a protein domain repeat perspective.

Light S, Sagit R, Ithychanda SS, Qin J, Elofsson A

J. Struct. Biol. 179 (3) 289-298 [2012-09-00; online 2012-03-10]

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The Revised Classification of Eukaryotes

Adl SM, Simpson AGB, Lane CE, ..., Smirnov A, Spiegel FW

J. Eukaryot. Microbiol. 59 (5) 429-514 [2012-09-00; online 2012-09-28]

Fabien Burki SciLifeLab Fellow

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Stepping stones in DNA sequencing.

Stranneheim H, Lundeberg J

Biotechnol J 7 (9) 1063-1073 [2012-09-00; online 2012-08-08]

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Positive allosteric feedback regulation of the stringent response enzyme RelA by its product.

Shyp V, Tankov S, Ermakov A, ..., Elf J, Hauryliuk V

EMBO Rep. 13 (9) 835-839 [2012-09-00; online 2012-07-20]

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Nanoscopy of Living Brain Slices with Low Light Levels

Testa I, Urban NT, Jakobs S, ..., Willig KI, Hell SW

Neuron 75 (6) 992-1000 [2012-09-00; online 2012-09-00]

Ilaria Testa SciLifeLab Fellow

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Molecular Dynamics Simulations of Lipid Membrane Electroporation

Delemotte L, Tarek M

J Membrane Biol 245 (9) 531-543 [2012-09-00; online 2012-05-30]

Lucie Delemotte SciLifeLab Fellow

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Intragenomic Spread of Plastid-Targeting Presequences in the Coccolithophore Emiliania huxleyi

Burki F, Hirakawa Y, Keeling PJ

Mol. Biol. Evol. 29 (9) 2109-2112 [2012-09-00; online 2012-03-30]

Fabien Burki SciLifeLab Fellow

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IQGAP1 regulates hyaluronan-mediated fibroblast motility and proliferation.

Kozlova I, Ruusala A, Voytyuk O, Skandalis SS, Heldin P

Cell. Signal. 24 (9) 1856-1862 [2012-09-00; online 2012-05-22]

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Distinct and diverse anaerobic bacterial communities in boreal lakes dominated by candidate division OD1

Peura S, Eiler A, Bertilsson S, ..., Tiirola M, Jones RI

ISME J 6 (9) 1640-1652 [2012-09-00; online 2012-03-15]

Sari Peura SciLifeLab Fellow

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Differentiation of mast cell subpopulations from mouse embryonic stem cells.

Westerberg CM, Ullerås E, Nilsson G

J. Immunol. Methods 382 (1-2) 160-166 [2012-08-31; online 2012-06-06]

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Molecular correlates and prognostic significance of SATB1 expression in colorectal cancer.

Nodin B, Johannesson H, Wangefjord S, ..., Jirström K, Eberhard J

Diagn Pathol 7 (-) 115 [2012-08-30; online 2012-08-30]

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Genome-wide polyadenylation site mapping.

Pelechano V, Wilkening S, Järvelin AI, Tekkedil MM, Steinmetz LM

Meth. Enzymol. 513 (-) 271-296 [2012-08-30; online 2012-08-30]

SciLifeLab Fellow Vicent Pelechano

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Transport of siRNA through Lipid Membranes Driven by Nanosecond Electric Pulses: An Experimental and Computational Study

Breton M, Delemotte L, Silve A, Mir LM, Tarek M

J. Am. Chem. Soc. 134 (34) 13938-13941 [2012-08-29; online 2012-08-16]

Lucie Delemotte SciLifeLab Fellow

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Functional convergence of hopanoids and sterols in membrane ordering.

Sáenz JP, Sezgin E, Schwille P, Simons K

Proc. Natl. Acad. Sci. U.S.A. 109 (35) 14236-14240 [2012-08-28; online 2012-08-14]

Erdinc Sezgin SciLifeLab Fellow

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Validation of whole genome amplification for analysis of the p53 tumor suppressor gene in limited amounts of tumor samples.

Hasmats J, Green H, Solnestam BW, ..., Bjursell M, Lundeberg J

Biochem. Biophys. Res. Commun. 425 (2) 379-383 [2012-08-24; online 2012-07-27]

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Structures of Pup ligase PafA and depupylase Dop from the prokaryotic ubiquitin-like modification pathway.

Özcelik D, Barandun J, Schmitz N, ..., Ban N, Weber-Ban E

Nat Commun 3 (-) 1014 [2012-08-23; online 2012-08-23]

Jonas Barandun SciLifeLab Fellow

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Novel origins of copy number variation in the dog genome.

Berglund J, Nevalainen EM, Molin AM, ..., Lohi H, Webster MT

Genome Biol. 13 (8) R73 [2012-08-23; online 2012-08-23]

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Tertiary Endosymbiosis in Two Dinotoms Has Generated Little Change in the Mitochondrial Genomes of Their Dinoflagellate Hosts and Diatom Endosymbionts

Imanian B, Pombert JF, Dorrell RG, Burki F, Keeling PJ

PLoS ONE 7 (8) e43763 [2012-08-20; online 2012-08-20]

Fabien Burki SciLifeLab Fellow

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Large-Scale Identification of MicroRNA Targets in Murine Dgcr8-Deficient Embryonic Stem Cell Lines

Davis MPA, Abreu-Goodger C, van Dongen S, ..., Enright AJ, Dunham I

PLoS ONE 7 (8) e41762 [2012-08-17; online 2012-08-17]

Claudia Kutter SciLifeLab Fellow

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Regulatory polymorphisms in β-tubulin IIa are associated with paclitaxel-induced peripheral neuropathy.

Leandro-García LJ, Leskelä S, Jara C, ..., Robledo M, Rodríguez-Antona C

Clin. Cancer Res. 18 (16) 4441-4448 [2012-08-15; online 2012-06-20]

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Separation of polypeptides by isoelectric point focusing in electrospray-friendly solution using a multiple-junction capillary fractionator.

Chingin K, Astorga-Wells J, Pirmoradian Najafabadi M, Lavold T, Zubarev RA

Anal. Chem. 84 (15) 6856-6862 [2012-08-07; online 2012-07-23]

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Proteomic screen reveals Fbw7 as a modulator of the NF-κB pathway.

Arabi A, Ullah K, Branca RM, ..., Lehtiö J, Sangfelt O

Nat Commun 3 (-) 976 [2012-08-07; online 2012-08-07]

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Platelet-derived growth factor over-expression in retinal progenitors results in abnormal retinal vessel formation.

Edqvist PH, Niklasson M, Vidal-Sanz M, Hallböök F, Forsberg-Nilsson K

PLoS ONE 7 (8) e42488 [2012-08-03; online 2012-08-03]

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Erlin-2 is associated with active γ-secretase in brain and affects amyloid β-peptide production.

Teranishi Y, Hur JY, Gu GJ, ..., Frykman S, Tjernberg LO

Biochem. Biophys. Res. Commun. 424 (3) 476-481 [2012-08-03; online 2012-07-04]

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Copy number expansion of the STX17 duplication in melanoma tissue from Grey horses.

Sundström E, Imsland F, Mikko S, ..., Lindblad-Toh K, Andersson L

BMC Genomics 13 (-) 365 [2012-08-02; online 2012-08-02]

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Phosphorylation of histone H3 Ser10 establishes a hierarchy for subsequent intramolecular modification events

Liokatis S, Stützer A, Elsässer SJ, ..., Fischle W, Selenko P

Nat Struct Mol Biol 19 (8) 819-823 [2012-08-00; online 2012-07-15]

SciLifeLab Fellow Simon Elsässer

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Model membrane platforms to study protein-membrane interactions.

Sezgin E, Schwille P

Mol. Membr. Biol. 29 (5) 144-154 [2012-08-00; online 2012-07-26]

Erdinc Sezgin SciLifeLab Fellow

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Long noncoding RNA-mediated maintenance of DNA methylation and transcriptional gene silencing.

Mohammad F, Pandey GK, Mondal T, ..., Gyllensten U, Kanduri C

Development 139 (15) 2792-2803 [2012-08-00; online 2012-06-21]

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Intractable epilepsy of infancy due to homozygous mutation in the EFHC1 gene.

Berger I, Dor T, Halvardson J, ..., Feuk L, Elpeleg O

Epilepsia 53 (8) 1436-1440 [2012-08-00; online 2012-06-12]

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Homologous recombination repairs secondary replication induced DNA double-strand breaks after ionizing radiation.

Groth P, Orta ML, Elvers I, ..., Lagerqvist A, Helleday T

Nucleic Acids Res. 40 (14) 6585-6594 [2012-08-00; online 2012-04-13]

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From where did the Western honeybee (Apis mellifera) originate?

Han F, Wallberg A, Webster MT

Ecol Evol 2 (8) 1949-1957 [2012-08-00; online 2012-07-12]

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Enhanced peptide identification by electron transfer dissociation using an improved Mascot Percolator.

Wright JC, Collins MO, Yu L, ..., Brosch M, Choudhary JS

Mol. Cell Proteomics 11 (8) 478-491 [2012-08-00; online 2012-04-06]

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Carbonyl charge solvation patterns may relate to fragmentation classes in collision-activated dissociation.

Yang H, Good DM, van der Spoel D, Zubarev RA

J. Am. Soc. Mass Spectrom. 23 (8) 1319-1325 [2012-08-00; online 2012-06-12]

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Albendazole causes stage-dependent developmental toxicity and is deactivated by a mammalian metabolization system in a modified zebrafish embryotoxicity test.

Mattsson A, Ullerås E, Patring J, Oskarsson A

Reprod. Toxicol. 34 (1) 31-42 [2012-08-00; online 2012-03-05]

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A-to-I editing of microRNAs in the mammalian brain increases during development.

Ekdahl Y, Farahani HS, Behm M, Lagergren J, Öhman M

Genome Res. 22 (8) 1477-1487 [2012-08-00; online 2012-05-29]

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A guideline to proteome-wide α-helical membrane protein topology predictions.

Tsirigos KD, Hennerdal A, Käll L, Elofsson A

Proteomics 12 (14) 2282-2294 [2012-08-00; online 2012-06-12]

Affiliated researcher

PubMed DOI Crossref

Gain and loss of multiple functionally related, horizontally transferred genes in the reduced genomes of two microsporidian parasites

Pombert JF, Selman M, Burki F, ..., Corradi N, Keeling PJ

Proceedings of the National Academy of Sciences 109 (31) 12638-12643 [2012-07-31; online 2012-07-16]

Fabien Burki SciLifeLab Fellow

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Antiparallel dimers of the small multidrug resistance protein EmrE are more stable than parallel dimers.

Lloris-Garcerá P, Bianchi F, Slusky JS, ..., Daley DO, von Heijne G

J. Biol. Chem. 287 (31) 26052-26059 [2012-07-27; online 2012-06-14]

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PubMed DOI Crossref

Rapid Turnover of Long Noncoding RNAs and the Evolution of Gene Expression

Kutter C, Watt S, Stefflova K, ..., Odom DT, Marques AC

PLoS Genet 8 (7) e1002841 [2012-07-26; online 2012-07-26]

Claudia Kutter SciLifeLab Fellow

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Differential DNA methylation in purified human blood cells: implications for cell lineage and studies on disease susceptibility.

Reinius LE, Acevedo N, Joerink M, ..., Scheynius A, Kere J

PLoS ONE 7 (7) e41361 [2012-07-25; online 2012-07-25]

Affiliated researcher

PubMed DOI Crossref

Sensitive detection of spores using volume-amplified magnetic nanobeads.

Gómez de la Torre TZ, Ke R, Mezger A, ..., Strømme M, Nilsson M

Small 8 (14) 2174-2177 [2012-07-23; online 2012-04-19]

Affiliated researcher

PubMed DOI Crossref

Coexistence of phases in a protein heterodimer.

Krokhotin A, Liwo A, Niemi AJ, Scheraga HA

J Chem Phys 137 (3) 035101 [2012-07-21; online 2012-07-27]

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PubMed DOI Crossref

Evidence of inbreeding depression on human height.

McQuillan R, Eklund N, Pirastu N, ..., Wilson JF, ROHgen Consortium

PLoS Genet 8 (7) e1002655 [2012-07-19; online 2012-07-19]

Affiliated researcher

PubMed DOI Crossref

High MCM3 expression is an independent biomarker of poor prognosis and correlates with reduced RBM3 expression in a prospective cohort of malignant melanoma.

Nodin B, Fridberg M, Jonsson L, ..., Uhlén M, Jirström K

Diagn Pathol 7 (-) 82 [2012-07-17; online 2012-07-17]

Affiliated researcher

PubMed DOI Crossref

Screening for the Location of RNA using the Chloride Ion Distribution in Simulations of Virus Capsids.

Larsson DS, van der Spoel D

J. Chem. Theory Comput. 8 (7) 2474-2483 [2012-07-10; online 2012-06-26]

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Profiling cellular protein complexes by proximity ligation with dual tag microarray readout.

Hammond M, Nong RY, Ericsson O, Pardali K, Landegren U

PLoS ONE 7 (7) e40405 [2012-07-10; online 2012-07-10]

Affiliated researcher

PubMed DOI Crossref

Regulation of EMT by TGFβ in cancer.

Heldin CH, Vanlandewijck M, Moustakas A

FEBS Lett. 586 (14) 1959-1970 [2012-07-04; online 2012-02-28]

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Tumor-dependent down-regulation of the ζ-chain in T-cells is detectable in early breast cancer and correlates with immune cell function.

Boniface JD, Poschke I, Mao Y, Kiessling R

Int. J. Cancer 131 (1) 129-139 [2012-07-01; online 2011-08-30]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

Coalescent-Based Analysis Distinguishes between Allo- and Autopolyploid Origin in Shepherd's Purse (Capsella bursa-pastoris)

St. Onge KR, Foxe JP, Li J, ..., Lascoux M, Wright SI

Molecular Biology and Evolution 29 (7) 1721-1733 [2012-07-01; online 2012-01-27]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Tumor proteomics by multivariate analysis on individual pathway data for characterization of vulvar cancer phenotypes.

Sandberg A, Lindell G, Källström BN, ..., Forshed J, Lehtiö J

Mol. Cell Proteomics 11 (7) M112.016998 [2012-07-00; online 2012-04-12]

Affiliated researcher

PubMed DOI Crossref

The aromatase gene CYP19A1: several genetic and functional lines of evidence supporting a role in reading, speech and language.

Anthoni H, Sucheston LE, Lewis BA, ..., Iyengar S, Kere J

Behav. Genet. 42 (4) 509-527 [2012-07-00; online 2012-03-17]

Affiliated researcher

PubMed DOI Crossref

The CDK5 repressor CDK5RAP1 is a methylthiotransferase acting on nuclear and mitochondrial RNA

Reiter V, Matschkal DMS, Wagner M, ..., Müller M, Carell T

Nucleic Acids Res. 40 (13) 6235-6240 [2012-07-00; online 2012-03-15]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Rrp6p Controls mRNA Poly(A) Tail Length and Its Decoration with Poly(A) Binding Proteins

Schmid M, Poulsen MB, Olszewski P, ..., Moore C, Jensen TH

Molecular Cell 47 (2) 267-280 [2012-07-00; online 2012-07-00]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Resequencing data provide no evidence for a human bottleneck in Africa during the penultimate glacial period.

Sjödin P, E Sjöstrand A, Jakobsson M, Blum MG

Mol. Biol. Evol. 29 (7) 1851-1860 [2012-07-00; online 2012-02-01]

Affiliated researcher

PubMed DOI Crossref

Partitioning, diffusion, and ligand binding of raft lipid analogs in model and cellular plasma membranes.

Sezgin E, Levental I, Grzybek M, ..., Simons K, Schwille P

Biochim. Biophys. Acta 1818 (7) 1777-1784 [2012-07-00; online 2012-03-28]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Next generation RNA-sequencing in prognostic subsets of chronic lymphocytic leukemia.

Mansouri L, Gunnarsson R, Sutton LA, ..., Gyllensten U, Rosenquist R

Am. J. Hematol. 87 (7) 737-740 [2012-07-00; online 2012-06-03]

Affiliated researcher

PubMed DOI Crossref

Microsatellite genotyping reveals end-Pleistocene decline in mammoth autosomal genetic variation.

Nyström V, Humphrey J, Skoglund P, ..., Lister A, Dalén L

Mol. Ecol. 21 (14) 3391-3402 [2012-07-00; online 2012-03-23]

Affiliated researcher

PubMed DOI Crossref

Megraft: a software package to graft ribosomal small subunit (16S/18S) fragments onto full-length sequences for accurate species richness and sequencing depth analysis in pyrosequencing-length metagenomes and similar environmental datasets.

Bengtsson J, Hartmann M, Unterseher M, ..., Eriksson KM, Nilsson RH

Res. Microbiol. 163 (6-7) 407-412 [2012-07-00; online 2012-07-21]

DDLS Fellow Johan Bengtsson-Palme

PubMed DOI Crossref

Macropinocytosis of the PDGF β-receptor promotes fibroblast transformation by H-RasG12V.

Schmees C, Villaseñor R, Zheng W, ..., Heldin CH, Hellberg C

Mol. Biol. Cell 23 (13) 2571-2582 [2012-07-00; online 2012-05-09]

Affiliated researcher

PubMed DOI Crossref

Intercellular variation in signaling through the TGF-β pathway and its relation to cell density and cell cycle phase.

Zieba A, Pardali K, Söderberg O, ..., Heldin CH, Landegren U

Mol. Cell Proteomics 11 (7) M111.013482 [2012-07-00; online 2012-03-22]

Affiliated researcher

PubMed DOI Crossref

Identification of new cancer biomarkers based on aberrant mucin glycoforms by in situ proximity ligation.

Pinto R, Carvalho AS, Conze T, ..., Söderberg O, David L

J. Cell. Mol. Med. 16 (7) 1474-1484 [2012-07-00; online 2011-09-03]

Affiliated researcher

PubMed DOI Crossref

Ichthyin/NIPAL4 localizes to keratins and desmosomes in epidermis and Ichthyin mutations affect epidermal lipid metabolism.

Dahlqvist J, Westermark GT, Vahlquist A, Dahl N

Arch. Dermatol. Res. 304 (5) 377-386 [2012-07-00; online 2012-01-19]

Affiliated researcher

PubMed DOI Crossref

DNA methylation levels within the CD14 promoter region are lower in placentas of mothers living on a farm.

Slaats GG, Reinius LE, Alm J, ..., Scheynius A, Joerink M

Allergy 67 (7) 895-903 [2012-07-00; online 2012-05-07]

Affiliated researcher

PubMed DOI Crossref

The lac repressor displays facilitated diffusion in living cells.

Hammar P, Leroy P, Mahmutovic A, ..., Berg OG, Elf J

Science 336 (6088) 1595-1598 [2012-06-22; online 2012-06-23]

Affiliated researcher

PubMed DOI Crossref

Proteomic analysis of cerebrospinal fluid in a fulminant case of multiple sclerosis.

Füvesi J, Hanrieder J, Bencsik K, ..., Vécsei L, Bergquist J

Int J Mol Sci 13 (6) 7676-7693 [2012-06-21; online 2012-06-21]

Affiliated researcher

PubMed DOI Crossref

Visualising individual sequence-specific protein-DNA interactions in situ.

Weibrecht I, Gavrilovic M, Lindbom L, ..., Wählby C, Söderberg O

N Biotechnol 29 (5) 589-598 [2012-06-15; online 2011-08-31]

Affiliated researcher

PubMed DOI Crossref

Validation of affinity reagents using antigen microarrays.

Sjöberg R, Sundberg M, Gundberg A, ..., Uhlén M, Nilsson P

N Biotechnol 29 (5) 555-563 [2012-06-15; online 2011-11-23]

Affiliated researcher

PubMed DOI Crossref

Two loci on chromosome 5 are associated with serum IgE levels in Labrador retrievers.

Owczarek-Lipska M, Lauber B, Molitor V, ..., Marti E, Leeb T

PLoS ONE 7 (6) e39176 [2012-06-15; online 2012-06-15]

Affiliated researcher

PubMed DOI Crossref

Ranking models of transmembrane β-barrel proteins using Z-coordinate predictions.

Hayat S, Elofsson A

Bioinformatics 28 (12) i90-i96 [2012-06-15; online 2012-06-13]

Affiliated researcher

PubMed DOI Crossref

Classification of protein profiles from antibody microarrays using heat and detergent treatment.

Häggmark A, Neiman M, Drobin K, ..., Nilsson P, Schwenk JM

N Biotechnol 29 (5) 564-570 [2012-06-15; online 2011-10-14]

Affiliated researcher

PubMed DOI Crossref

Data-driven unbiased curation of the TP53 tumor suppressor gene mutation database and validation by ultradeep sequencing of human tumors.

Edlund K, Larsson O, Ameur A, ..., Botling J, Soussi T

Proc. Natl. Acad. Sci. U.S.A. 109 (24) 9551-9556 [2012-06-12; online 2012-05-24]

Affiliated researcher

PubMed DOI Crossref

Use of structural phylogenetic networks for classification of the ferritin-like superfamily.

Lundin D, Poole AM, Sjöberg BM, Högbom M

J. Biol. Chem. 287 (24) 20565-20575 [2012-06-08; online 2012-04-25]

Affiliated researcher

PubMed DOI Crossref

Bacterial and Phytoplankton Responses to Nutrient Amendments in a Boreal Lake Differ According to Season and to Taxonomic Resolution

Peura S, Eiler A, Hiltunen M, ..., Tiirola M, Jones RI

PLoS ONE 7 (6) e38552 [2012-06-08; online 2012-06-08]

Sari Peura SciLifeLab Fellow

PubMed DOI Crossref

The evolutionary history of haptophytes and cryptophytes: phylogenomic evidence for separate origins

Burki F, Okamoto N, Pombert JF, Keeling PJ

Proceedings of the Royal Society B: Biological Sciences 279 (1736) 2246-2254 [2012-06-07; online 2012-02-01]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Differential regulation of the two RhoA-specific GEF isoforms Net1/Net1A by TGF-β and miR-24: role in epithelial-to-mesenchymal transition.

Papadimitriou E, Vasilaki E, Vorvis C, ..., Kardassis D, Stournaras C

Oncogene 31 (23) 2862-2875 [2012-06-07; online 2011-10-10]

Affiliated researcher

PubMed DOI Crossref

Rethinking dog domestication by integrating genetics, archeology, and biogeography.

Larson G, Karlsson EK, Perri A, ..., Andersson L, Lindblad-Toh K

Proc. Natl. Acad. Sci. U.S.A. 109 (23) 8878-8883 [2012-06-05; online 2012-05-21]

Affiliated researcher

PubMed DOI Crossref

Mre11-dependent degradation of stalled DNA replication forks is prevented by BRCA2 and PARP1.

Ying S, Hamdy FC, Helleday T

Cancer Res. 72 (11) 2814-2821 [2012-06-01; online 2012-03-23]

Affiliated researcher

PubMed DOI Crossref

Minor structural modifications to alchemix influence mechanism of action and pharmacological activity.

Abdallah QM, Phillips RM, Johansson F, ..., Patterson LH, Pors K

Biochem. Pharmacol. 83 (11) 1514-1522 [2012-06-01; online 2012-03-01]

Affiliated researcher

PubMed DOI Crossref

Collodictyon--An Ancient Lineage in the Tree of Eukaryotes

Zhao S, Burki F, Brate J, ..., Klaveness D, Shalchian-Tabrizi K

Molecular Biology and Evolution 29 (6) 1557-1568 [2012-06-01; online 2012-01-06]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Which sequencing depth is sufficient to describe patterns in bacterial α- and β-diversity?

Lundin D, Severin I, Logue JB, ..., Andersson AF, Lindström ES

Environ Microbiol Rep 4 (3) 367-372 [2012-06-00; online 2012-04-23]

Affiliated researcher

PubMed DOI Crossref

Radical a-ions in electron capture dissociation: on the origin of species.

Zubarev RA, Good DM, Savitski MM

J. Am. Soc. Mass Spectrom. 23 (6) 1015-1018 [2012-06-00; online 2012-04-17]

Affiliated researcher

PubMed DOI Crossref

Myeloid-derived suppressor cells impair the quality of dendritic cell vaccines.

Poschke I, Mao Y, Adamson L, ..., Masucci G, Kiessling R

Cancer Immunol. Immunother. 61 (6) 827-838 [2012-06-00; online 2011-11-12]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

Microbial diversity of biofilm communities in microniches associated with the didemnid ascidian Lissoclinum patella.

Behrendt L, Larkum AW, Trampe E, ..., Sørensen SJ, Kühl M

ISME J 6 (6) 1222-1237 [2012-06-00; online 2011-12-01]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Biofilm growth and near-infrared radiation-driven photosynthesis of the chlorophyll d-containing cyanobacterium Acaryochloris marina.

Behrendt L, Schrameyer V, Qvortrup K, ..., Larkum AW, Kühl M

Applied and environmental microbiology 78 (11) 3896-3904 [2012-06-00; online 2012-03-30]

Lars Behrendt SciLifeLab Fellow

PubMed DOI Crossref

Accelerated proliferation and differential global gene expression in pancreatic islets of five-week-old heterozygous Men1 mice: Men1 is a haploinsufficient suppressor.

Lejonklou MH, Barbu A, Stålberg P, Skogseid B

Endocrinology 153 (6) 2588-2598 [2012-06-00; online 2012-04-04]

Affiliated researcher

PubMed DOI Crossref

Production of tissue microarrays, immunohistochemistry staining and digitalization within the human protein atlas.

Kampf C, Olsson I, Ryberg U, Sjöstedt E, Pontén F

J Vis Exp - (63) - [2012-05-31; online 2012-05-31]

Affiliated researcher

PubMed DOI Crossref

CAR/FoxP3-engineered T regulatory cells target the CNS and suppress EAE upon intranasal delivery.

Fransson M, Piras E, Burman J, ..., Brittebo E, Loskog AS

J Neuroinflammation 9 (-) 112 [2012-05-30; online 2012-05-30]

Affiliated researcher

PubMed DOI Crossref

Studies on the restriction of murine leukemia viruses by mouse APOBEC3.

Sanchez-Martinez S, Aloia AL, Harvin D, ..., Coffin JM, Rein A

PLoS ONE 7 (5) e38190 [2012-05-29; online 2012-05-29]

Affiliated researcher

PubMed

Evidence for a negative association between schizophrenia and a polymorphism in the insulin receptor substrate-3 (IRS-3) gene.

Melkersson K, Persson B

Neuro Endocrinol. Lett. 33 (3) 321-330 [2012-05-29; online 2012-05-29]

Affiliated researcher

PubMed DOI Crossref

Context-dependent action of transforming growth factor β family members on normal and cancer stem cells.

Caja L, Kahata K, Moustakas A

Curr. Pharm. Des. 18 (27) 4072-4086 [2012-05-29; online 2012-05-29]

Affiliated researcher

PubMed DOI Crossref

Automated Solid-Phase Subcloning Based on Beads Brought into Proximity by Magnetic Force

Hudson EP, Nikoshkov A, Uhlen M, Rockberg J

PLoS ONE 7 (5) e37429 [2012-05-18; online 2012-05-18]

Affiliated researcher Paul Hudson SciLifeLab Fellow

PubMed DOI Crossref

Reconstruction of Genome-Scale Active Metabolic Networks for 69 Human Cell Types and 16 Cancer Types Using INIT

Agren R, Bordel S, Mardinoglu A, ..., Nookaew I, Nielsen J

PLoS Comput Biol 8 (5) e1002518 [2012-05-17; online 2012-05-17]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Novel pancreatic beta cell-specific proteins: antibody-based proteomics for identification of new biomarker candidates.

Lindskog C, Korsgren O, Pontén F, ..., Johansson L, Danielsson A

J Proteomics 75 (9) 2611-2620 [2012-05-17; online 2012-03-21]

Affiliated researcher

PubMed DOI Crossref

Efficient glycosylphosphatidylinositol (GPI) modification of membrane proteins requires a C-terminal anchoring signal of marginal hydrophobicity.

Galian C, Björkholm P, Bulleid N, von Heijne G

J. Biol. Chem. 287 (20) 16399-16409 [2012-05-11; online 2012-03-19]

Affiliated researcher

PubMed DOI Crossref

De-novo transcriptome sequencing of a normalized cDNA pool from influenza infected ferrets.

Camp JV, Svensson TL, McBrayer A, ..., Liljeström P, Bruder CE

PLoS ONE 7 (5) e37104 [2012-05-11; online 2012-05-11]

Affiliated researcher

PubMed DOI Crossref

Lipid-based passivation in nanofluidics.

Persson F, Fritzsche J, Mir KU, ..., Westerlund F, Tegenfeldt JO

Nano Lett. 12 (5) 2260-2265 [2012-05-09; online 2012-04-06]

Affiliated researcher

PubMed DOI Crossref

Prediction and identification of sequences coding for orphan enzymes using genomic and metagenomic neighbours

Yamada T, Waller AS, Raes J, ..., Weissenbach J, Bork P

Mol Syst Biol 8 (-) - [2012-05-08; online 2012-05-08]

Aleksej Zelezniak SciLifeLab Fellow

PubMed DOI Crossref

Genetic adaptation of fatty-acid metabolism: a human-specific haplotype increasing the biosynthesis of long-chain omega-3 and omega-6 fatty acids.

Ameur A, Enroth S, Johansson A, ..., Campbell H, Gyllensten U

Am. J. Hum. Genet. 90 (5) 809-820 [2012-05-04; online 2012-04-12]

Affiliated researcher

PubMed DOI Crossref

Elucidating membrane structure and protein behavior using giant plasma membrane vesicles.

Sezgin E, Kaiser HJ, Baumgart T, ..., Simons K, Levental I

Nat Protoc 7 (6) 1042-1051 [2012-05-03; online 2012-05-03]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

A comprehensive analysis of human gene expression profiles identifies stromal immunoglobulin κ C as a compatible prognostic marker in human solid tumors.

Schmidt M, Hellwig B, Hammad S, ..., Rahnenführer J, Hengstler JG

Clin. Cancer Res. 18 (9) 2695-2703 [2012-05-01; online 2012-02-20]

Affiliated researcher

PubMed DOI Crossref

Thapsigargin down-regulates protein levels of GRP78/BiP in INS-1E cells.

Rosengren V, Johansson H, Lehtiö J, ..., Sjöholm A, Ortsäter H

J. Cell. Biochem. 113 (5) 1635-1644 [2012-05-00; online 2011-12-23]

Affiliated researcher

PubMed DOI Crossref

Somatic mutations in the Notch, NF-KB, PIK3CA, and Hedgehog pathways in human breast cancers.

Jiao X, Wood LD, Lindman M, ..., Karchin R, Sjöblom T

Genes Chromosomes Cancer 51 (5) 480-489 [2012-05-00; online 2012-02-03]

Affiliated researcher

PubMed DOI Crossref

Primary high-risk HPV screening for cervical cancer in post-menopausal women.

Gyllensten U, Gustavsson I, Lindell M, Wilander E

Gynecol. Oncol. 125 (2) 343-345 [2012-05-00; online 2012-01-28]

Affiliated researcher

PubMed DOI Crossref

Origins of domestic dog in southern East Asia is supported by analysis of Y-chromosome DNA.

Ding ZL, Oskarsson M, Ardalan A, ..., Savolainen P, Zhang YP

Heredity (Edinb) 108 (5) 507-514 [2012-05-00; online 2011-11-23]

Affiliated researcher

PubMed DOI Crossref

Neural stem cells: brain building blocks and beyond.

Bergström T, Forsberg-Nilsson K

Ups. J. Med. Sci. 117 (2) 132-142 [2012-05-00; online 2012-04-20]

Affiliated researcher

PubMed DOI Crossref

Inherited mosaicism for the supernumerary marker chromosome in cat eye syndrome: inter- and intra-individual variation and correlation to the phenotype.

Kvarnung M, Lindstrand A, Malmgren H, ..., Lundin J, Blennow E

Am. J. Med. Genet. A 158A (5) 1111-1117 [2012-05-00; online 2012-04-11]

Affiliated researcher

PubMed DOI Crossref

Genetic architecture and adaptive significance of the selfing syndrome in Capsella.

Slotte T, Hazzouri KM, Stern D, Andolfatto P, Wright SI

Evolution 66 (5) 1360-1374 [2012-05-00; online 2012-03-03]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Functional overlap between chondroitin and heparan sulfate proteoglycans during VEGF-induced sprouting angiogenesis.

Le Jan S, Hayashi M, Kasza Z, ..., Kjellén L, Kreuger J

Arterioscler. Thromb. Vasc. Biol. 32 (5) 1255-1263 [2012-05-00; online 2012-02-16]

Affiliated researcher

PubMed DOI Crossref

Exploration of signals of positive selection derived from genotype-based human genome scans using re-sequencing data.

Hu M, Ayub Q, Guerra-Assunção JA, ..., Tyler-Smith C, Xue Y

Hum. Genet. 131 (5) 665-674 [2012-05-00; online 2011-11-05]

Affiliated researcher

PubMed DOI Crossref

Dopamine, working memory, and training induced plasticity: implications for developmental research.

Söderqvist S, Bergman Nutley S, Peyrard-Janvid M, ..., Kere J, Klingberg T

Dev Psychol 48 (3) 836-843 [2012-05-00; online 2011-11-21]

Affiliated researcher

PubMed DOI Crossref

A mixed double negative feedback loop between the sRNA MicF and the global regulator Lrp.

Holmqvist E, Unoson C, Reimegård J, Wagner EG

Mol. Microbiol. 84 (3) 414-427 [2012-05-00; online 2012-02-13]

Affiliated researcher

PubMed DOI Crossref

Origins and genetic legacy of Neolithic farmers and hunter-gatherers in Europe.

Skoglund P, Malmström H, Raghavan M, ..., Götherström A, Jakobsson M

Science 336 (6080) 466-469 [2012-04-27; online 2012-04-28]

Affiliated researcher

PubMed DOI Crossref

Uncharacterized 4,5-Dihydroxy-2,3-Pentanedione (DPD) Molecules Revealed Through NMR Spectroscopy: Implications for a Greater Signaling Diversity in Bacterial Species

Globisch D, Lowery CA, McCague KC, Janda KD

Angewandte Chemie International Edition 51 (17) 4204-4208 [2012-04-23; online 2012-02-29]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

An image analysis toolbox for high-throughput C. elegans assays.

Wählby C, Kamentsky L, Liu ZH, ..., Ausubel FM, Carpenter AE

Nat. Methods 9 (7) 714-716 [2012-04-22; online 2012-04-22]

Affiliated researcher

PubMed DOI Crossref

Clusters of secretagogin-expressing neurons in the aged human olfactory tract lack terminal differentiation.

Attems J, Alpar A, Spence L, ..., Hökfelt TG, Harkany T

Proc. Natl. Acad. Sci. U.S.A. 109 (16) 6259-6264 [2012-04-17; online 2012-04-02]

Affiliated researcher

PubMed DOI Crossref

Quality criteria for finding genes with high mRNA-protein expression correlation and coexpression correlation.

Ostlund G, Sonnhammer EL

Gene 497 (2) 228-236 [2012-04-15; online 2012-02-04]

Affiliated researcher

PubMed DOI Crossref

Transcriptional induction of salt-inducible kinase 1 by transforming growth factor β leads to negative regulation of type I receptor signaling in cooperation with the Smurf2 ubiquitin ligase.

Lönn P, Vanlandewijck M, Raja E, ..., Heldin CH, Moustakas A

J. Biol. Chem. 287 (16) 12867-12878 [2012-04-13; online 2012-02-29]

Affiliated researcher

PubMed DOI Crossref

De novo microdeletions of chromosome 6q14.1-q14.3 and 6q12.1-q14.1 in two patients with intellectual disability - further delineation of the 6q14 microdeletion syndrome and review of the literature.

Becker K, Di Donato N, Holder-Espinasse M, ..., Jønch AE, Hackmann K

Eur J Med Genet 55 (8-9) 490-497 [2012-04-12; online 2012-04-12]

Affiliated researcher

PubMed DOI Crossref

Multiple mitochondrial introgression events and heteroplasmy in trypanosoma cruzi revealed by maxicircle MLST and next generation sequencing.

Messenger LA, Llewellyn MS, Bhattacharyya T, ..., Andersson B, Miles MA

PLoS Negl Trop Dis 6 (4) e1584 [2012-04-10; online 2012-04-10]

Affiliated researcher

PubMed DOI Crossref

The genomic basis of adaptive evolution in threespine sticklebacks.

Jones FC, Grabherr MG, Chan YF, ..., Lindblad-Toh K, Kingsley DM

Nature 484 (7392) 55-61 [2012-04-04; online 2012-04-04]

Affiliated researcher

PubMed DOI Crossref

Systematic validation of antibody binding and protein subcellular localization using siRNA and confocal microscopy.

Stadler C, Hjelmare M, Neumann B, ..., Uhlén M, Lundberg E

J Proteomics 75 (7) 2236-2251 [2012-04-03; online 2012-02-15]

Affiliated researcher

PubMed DOI Crossref

Activated paper surfaces for the rapid hybridization of DNA through capillary transport.

Araújo AC, Song Y, Lundeberg J, Ståhl PL, Brumer H

Anal. Chem. 84 (7) 3311-3317 [2012-04-03; online 2012-03-12]

Affiliated researcher

PubMed DOI Crossref

Role of cis-12-Oxo-Phytodienoic Acid in Tomato Embryo Development

Goetz S, Hellwege A, Stenzel I, ..., Wasternack C, Hause B

PLANT PHYSIOLOGY 158 (4) 1715-1727 [2012-04-01; online 2012-02-14]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

T regulatory cells in B-cell malignancy - tumour support or kiss of death?

Lindqvist CA, Loskog AS

Immunology 135 (4) 255-260 [2012-04-00; online 2011-11-25]

Affiliated researcher

PubMed DOI Crossref

Proteomic profiling of follicular and papillary thyroid tumors.

Sofiadis A, Becker S, Hellman U, ..., Lehtiö J, Larsson C

Eur. J. Endocrinol. 166 (4) 657-667 [2012-04-00; online 2012-01-24]

Affiliated researcher

PubMed DOI Crossref

Preclinical evaluation of a 68Ga-labeled biotin analogue for applications in islet transplantation.

Eriksson O, Carlsson F, Blom E, ..., Korsgren O, Velikyan I

Nucl. Med. Biol. 39 (3) 415-421 [2012-04-00; online 2011-12-01]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Mantle cell lymphoma displays a homogenous methylation profile: a comparative analysis with chronic lymphocytic leukemia.

Halldórsdóttir AM, Kanduri M, Marincevic M, ..., Ehrencrona H, Rosenquist R

Am. J. Hematol. 87 (4) 361-367 [2012-04-00; online 2012-02-28]

Affiliated researcher

PubMed DOI Crossref

Manipulating the genetic code for membrane protein production: what have we learnt so far?

Nørholm MH, Light S, Virkki MT, ..., von Heijne G, Daley DO

Biochim. Biophys. Acta 1818 (4) 1091-1096 [2012-04-00; online 2011-08-22]

Affiliated researcher

DOI Crossref

Generalized Semilinear Canonical Correlation Analysis Applied to the Analysis of Electroencephalogram (EEG) Data

Brain P, Strimenopoulou F, Ivarsson M

Statistics in Biopharmaceutical Research 4 (2) 149-161 [2012-04-00; online 2012-04-00]

Affiliated researcher

PubMed DOI Crossref

Chromatographic retention time prediction for posttranslationally modified peptides.

Moruz L, Staes A, Foster JM, ..., Martens L, Käll L

Proteomics 12 (8) 1151-1159 [2012-04-00; online 2012-05-12]

Affiliated researcher

PubMed DOI Crossref

Undersulfation of heparan sulfate restricts differentiation potential of mouse embryonic stem cells.

Forsberg M, Holmborn K, Kundu S, ..., Kjellén L, Forsberg-Nilsson K

J. Biol. Chem. 287 (14) 10853-10862 [2012-03-30; online 2012-02-01]

Affiliated researcher

PubMed DOI Crossref

The relative importance of transcription rate, cryptic transcription and mRNA stability on shaping stress responses in yeast.

García-Martínez J, Ayala G, Pelechano V, ..., Herrero E, Pérez-Ortín JE

Transcription 3 (1) 39-44 [2012-03-30; online 2012-03-30]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Penetration of amphiphilic quantum dots through model and cellular plasma membranes.

Dubavik A, Sezgin E, Lesnyak V, ..., Schwille P, Eychmüller A

ACS Nano 6 (3) 2150-2156 [2012-03-27; online 2012-02-13]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Estimating demographic parameters from large-scale population genomic data using Approximate Bayesian Computation.

Li S, Jakobsson M

BMC Genet. 13 (-) 22 [2012-03-27; online 2012-03-27]

Affiliated researcher

PubMed DOI Crossref

Toward the single-hour high-quality genome.

Ståhl PL, Lundeberg J

Annu. Rev. Biochem. 81 (-) 359-378 [2012-03-20; online 2012-03-20]

Affiliated researcher

PubMed DOI Crossref

Genome-wide association scan identifies a risk locus for preeclampsia on 2q14, near the inhibin, beta B gene.

Johnson MP, Brennecke SP, East CE, ..., Blangero J, Moses EK

PLoS ONE 7 (3) e33666 [2012-03-14; online 2012-03-14]

Affiliated researcher

PubMed DOI Crossref

Infantile cerebellar-retinal degeneration associated with a mutation in mitochondrial aconitase, ACO2.

Spiegel R, Pines O, Ta-Shma A, ..., Feuk L, Elpeleg O

Am. J. Hum. Genet. 90 (3) 518-523 [2012-03-09; online 2012-03-13]

Affiliated researcher

PubMed DOI Crossref

Scalable in situ hybridization on tissue arrays for validation of novel cancer and tissue-specific biomarkers.

Kiflemariam S, Andersson S, Asplund A, Pontén F, Sjöblom T

PLoS ONE 7 (3) e32927 [2012-03-08; online 2012-03-08]

Affiliated researcher

PubMed DOI Crossref

Mitochondrial DNA data indicate an introduction through Mainland Southeast Asia for Australian dingoes and Polynesian domestic dogs.

Oskarsson MC, Klütsch CF, Boonyaprakob U, ..., Tanabe Y, Savolainen P

Proc. Biol. Sci. 279 (1730) 967-974 [2012-03-07; online 2011-09-07]

Affiliated researcher

PubMed DOI Crossref

Regulation of transcription factor Twist expression by the DNA architectural protein high mobility group A2 during epithelial-to-mesenchymal transition.

Tan EJ, Thuault S, Caja L, ..., Heldin CH, Moustakas A

J. Biol. Chem. 287 (10) 7134-7145 [2012-03-02; online 2012-01-11]

Affiliated researcher

PubMed DOI Crossref

HER2/HER3 signaling regulates NK cell-mediated cytotoxicity via MHC class I chain-related molecule A and B expression in human breast cancer cell lines.

Okita R, Mougiakakos D, Ando T, ..., Mimura K, Kiessling R

J. Immunol. 188 (5) 2136-2145 [2012-03-01; online 2012-02-01]

SciLifeLab Fellow Yumeng Mao

PubMed DOI Crossref

Downregulation of SMG-1 in HPV-positive head and neck squamous cell carcinoma due to promoter hypermethylation correlates with improved survival.

Gubanova E, Brown B, Ivanov SV, ..., Yarbrough WG, Issaeva N

Clin. Cancer Res. 18 (5) 1257-1267 [2012-03-01; online 2012-01-13]

Affiliated researcher

PubMed DOI Crossref

Castration therapy of prostate cancer results in downregulation of HIF-1α levels.

Al-Ubaidi FL, Schultz N, Egevad L, Granfors T, Helleday T

Int. J. Radiat. Oncol. Biol. Phys. 82 (3) 1243-1248 [2012-03-01; online 2012-01-31]

Affiliated researcher

PubMed DOI Crossref

Artificially designed promoters: understanding the role of spatial features and canonical binding sites in transcription.

Baumann M, Höppner MP, Meier M, ..., Mauceli E, Grabherr MG

Bioeng Bugs 3 (2) 120-123 [2012-03-01; online 2012-03-01]

Affiliated researcher

PubMed DOI Crossref

Towards a mechanism for histone chaperones

Elsässer SJ, D'Arcy S

Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1819 (3-4) 211-221 [2012-03-00; online 2012-03-00]

SciLifeLab Fellow Simon Elsässer

PubMed DOI Crossref

Systematic analysis of protein pools, isoforms, and modifications affecting turnover and subcellular localization.

Ahmad Y, Boisvert FM, Lundberg E, Uhlen M, Lamond AI

Mol. Cell Proteomics 11 (3) M111.013680 [2012-03-00; online 2011-10-16]

Affiliated researcher

PubMed DOI Crossref

Signaling pathways involved in the regulation of TNFα-induced toll-like receptor 2 expression in human gingival fibroblasts.

Davanian H, Båge T, Lindberg J, ..., Sällberg Chen M, Yucel-Lindberg T

Cytokine 57 (3) 406-416 [2012-03-00; online 2012-01-05]

Affiliated researcher

PubMed DOI Crossref

Narrow genetic basis for the Australian dingo confirmed through analysis of paternal ancestry.

Ardalan A, Oskarsson M, Natanaelsson C, ..., Ahmadian A, Savolainen P

Genetica 140 (1-3) 65-73 [2012-03-00; online 2012-05-23]

Affiliated researcher

PubMed DOI Crossref

Imaging the islet graft by positron emission tomography.

Eriksson O, Alavi A

Eur. J. Nucl. Med. Mol. Imaging 39 (3) 533-542 [2012-03-00; online 2011-09-20]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Genome-Based Reconstruction of the Protein Import Machinery in the Secondary Plastid of a Chlorarachniophyte Alga

Hirakawa Y, Burki F, Keeling PJ

Eukaryotic Cell 11 (3) 324-333 [2012-03-00; online 2012-01-20]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Direct and indirect consequences of meiotic recombination: implications for genome evolution.

Webster MT, Hurst LD

Trends in Genetics 28 (3) 101-109 [2012-03-00; online 2011-12-07]

Affiliated researcher

PubMed DOI Crossref

Characterization of MRFAP1 turnover and interactions downstream of the NEDD8 pathway.

Larance M, Kirkwood KJ, Xirodimas DP, ..., Uhlen M, Lamond AI

Mol. Cell Proteomics 11 (3) M111.014407 [2012-03-00; online 2011-10-29]

Affiliated researcher

PubMed DOI Crossref

Antibody-based protein profiling of the human chromosome 21.

Uhlén M, Oksvold P, Älgenäs C, ..., Kondo T, Sivertsson Å

Mol. Cell Proteomics 11 (3) M111.013458 [2012-03-00; online 2011-10-31]

Affiliated researcher

PubMed DOI Crossref

Advancing cell biology through proteomics in space and time (PROSPECTS).

Lamond AI, Uhlen M, Horning S, ..., Aebersold R, Mann M

Mol. Cell Proteomics 11 (3) O112.017731 [2012-03-00; online 2012-02-06]

Affiliated researcher

PubMed DOI Crossref

A Protein Epitope Signature Tag (PrEST) library allows SILAC-based absolute quantification and multiplexed determination of protein copy numbers in cell lines.

Zeiler M, Straube WL, Lundberg E, Uhlen M, Mann M

Mol. Cell Proteomics 11 (3) O111.009613 [2012-03-00; online 2011-09-30]

Affiliated researcher

PubMed DOI Crossref

The dyslexia candidate gene DYX1C1 is a potential marker of poor survival in breast cancer.

Rosin G, Hannelius U, Lindström L, ..., Hartman J, Kere J

BMC Cancer 12 (-) 79 [2012-02-29; online 2012-02-29]

Affiliated researcher

PubMed DOI Crossref

Working memory brain activity and capacity link MAOA polymorphism to aggressive behavior during development.

Ziermans T, Dumontheil I, Roggeman C, ..., Kere J, Klingberg T

Transl Psychiatry 2 (-) e85 [2012-02-28; online 2012-02-28]

Affiliated researcher

PubMed DOI Crossref

Combined chromatin and expression analysis reveals specific regulatory mechanisms within cytokine genes in the macrophage early immune response.

Iglesias MJ, Jesus Iglesias M, Reilly SJ, ..., Hamsten A, Odeberg J

PLoS ONE 7 (2) e32306 [2012-02-27; online 2012-02-27]

Affiliated researcher

PubMed DOI Crossref

Orientational preferences of neighboring helices can drive ER insertion of a marginally hydrophobic transmembrane helix.

Ojemalm K, Halling KK, Nilsson I, von Heijne G

Mol. Cell 45 (4) 529-540 [2012-02-24; online 2012-01-25]

Affiliated researcher

PubMed DOI Crossref

Rapid identification of bio-molecules applied for detection of biosecurity agents using rolling circle amplification.

Göransson J, Ke R, Nong RY, ..., Jarvius J, Nilsson M

PLoS ONE 7 (2) e31068 [2012-02-22; online 2012-02-22]

Affiliated researcher

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Opportunities for sensitive plasma proteome analysis.

Landegren U, Vänelid J, Hammond M, ..., Ullerås E, Kamali-Moghaddam M

Anal. Chem. 84 (4) 1824-1830 [2012-02-21; online 2012-02-01]

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Gis1 and Rph1 regulate glycerol and acetate metabolism in glucose depleted yeast cells.

Orzechowski Westholm J, Tronnersjö S, Nordberg N, ..., Komorowski J, Ronne H

PLoS ONE 7 (2) e31577 [2012-02-21; online 2012-02-21]

Affiliated researcher

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Characterization of the viral microbiome in patients with severe lower respiratory tract infections, using metagenomic sequencing.

Lysholm F, Wetterbom A, Lindau C, ..., Allander T, Andersson B

PLoS ONE 7 (2) e30875 [2012-02-15; online 2012-02-15]

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PubMed DOI Crossref

DNA-assisted protein detection technologies.

Nong RY, Gu J, Darmanis S, Kamali-Moghaddam M, Landegren U

Expert Rev Proteomics 9 (1) 21-32 [2012-02-02; online 2012-02-02]

Affiliated researcher

PubMed DOI Crossref

The renaissance of Ca2+-binding proteins in the nervous system: secretagogin takes center stage.

Alpár A, Attems J, Mulder J, Hökfelt T, Harkany T

Cell. Signal. 24 (2) 378-387 [2012-02-00; online 2011-10-01]

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PubMed DOI Crossref

Systems medicine and metabolic modelling.

Mardinoglu A, Nielsen J

J. Intern. Med. 271 (2) 142-154 [2012-02-00; online 2011-12-07]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Select microRNAs are essential for early development in the sea urchin

Song JL, Stoeckius M, Maaskola J, ..., Rajewsky N, Wessel GM

Developmental Biology 362 (1) 104-113 [2012-02-00; online 2012-02-00]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Nearest neighbor analysis of dopamine D1 receptors and Na(+)-K(+)-ATPases in dendritic spines dissected by STED microscopy.

Blom H, Rönnlund D, Scott L, ..., Aperia A, Brismar H

Microsc. Res. Tech. 75 (2) 220-228 [2012-02-00; online 2011-08-01]

Affiliated researcher

PubMed DOI Crossref

Low diversity of the gut microbiota in infants with atopic eczema.

Abrahamsson TR, Jakobsson HE, Andersson AF, ..., Engstrand L, Jenmalm MC

J. Allergy Clin. Immunol. 129 (2) 434-40, 440.e1-2 [2012-02-00; online 2011-12-06]

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PubMed DOI Crossref

Independent genome reduction and phylogenetic reclassification of the oceanic SAR11 clade.

Viklund J, Ettema TJ, Andersson SG

Mol. Biol. Evol. 29 (2) 599-615 [2012-02-00; online 2011-09-07]

Affiliated researcher

PubMed DOI Crossref

Impact of ABCB1 variants on neutrophil depression: a pharmacogenomic study of paclitaxel in 92 women with ovarian cancer.

Bergmann TK, Brasch-Andersen C, Gréen H, ..., Vach W, Brøsen K

Basic Clin. Pharmacol. Toxicol. 110 (2) 199-204 [2012-02-00; online 2011-10-25]

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Double peaks reveal rare diplomonad sex.

Andersson JO

Trends Parasitol. 28 (2) 46-52 [2012-02-00; online 2011-12-20]

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PubMed DOI Crossref

A novel microdeletion syndrome at 3q13.31 characterised by developmental delay, postnatal overgrowth, hypoplastic male genitals, and characteristic facial features.

Molin AM, Andrieux J, Koolen DA, ..., Bondeson ML, Annerén G

J. Med. Genet. 49 (2) 104-109 [2012-02-00; online 2011-12-17]

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PubMed DOI Crossref

Discovery of dachshund 2 protein as a novel biomarker of poor prognosis in epithelial ovarian cancer.

Nodin B, Fridberg M, Uhlén M, Jirström K

J Ovarian Res 5 (1) 6 [2012-01-27; online 2012-01-27]

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PubMed DOI Crossref

Quantitative live cell fluorescence-microscopy analysis of fission yeast.

Bjerling P, Olsson I, Meng X

J Vis Exp - (59) - [2012-01-23; online 2012-01-23]

Affiliated researcher

PubMed DOI Crossref

Human ROBO1 regulates interaural interaction in auditory pathways.

Lamminmäki S, Massinen S, Nopola-Hemmi J, Kere J, Hari R

J. Neurosci. 32 (3) 966-971 [2012-01-18; online 2012-01-21]

Affiliated researcher

PubMed DOI Crossref

A strand specific high resolution normalization method for chip-sequencing data employing multiple experimental control measurements.

Enroth S, Andersson CR, Andersson R, ..., Gustafsson MG, Komorowski J

Algorithms Mol Biol 7 (1) 2 [2012-01-16; online 2012-01-16]

Affiliated researcher

PubMed DOI Crossref

Antisense noncoding RNA promoter regulates the timing of de novo methylation of an imprinting control region.

Guseva N, Mondal T, Kanduri C

Dev. Biol. 361 (2) 403-411 [2012-01-15; online 2011-11-15]

Affiliated researcher

PubMed DOI Crossref

Molecular recognition of a single sphingolipid species by a protein's transmembrane domain.

Contreras FX, Ernst AM, Haberkant P, ..., Wieland F, Brügger B

Nature 481 (7382) 525-529 [2012-01-09; online 2012-01-09]

Affiliated researcher

PubMed DOI Crossref

Combinations of histone modifications mark exon inclusion levels.

Enroth S, Bornelöv S, Wadelius C, Komorowski J

PLoS ONE 7 (1) e29911 [2012-01-05; online 2012-01-05]

Affiliated researcher

PubMed DOI Crossref

Identifying and Characterizing Alternative Molecular Markers for the Symbiotic and Free-Living Dinoflagellate Genus Symbiodinium

Pochon X, Putnam HM, Burki F, Gates RD

PLoS ONE 7 (1) e29816 [2012-01-04; online 2012-01-04]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

siRNA silencing of proteasome maturation protein (POMP) activates the unfolded protein response and constitutes a model for KLICK genodermatosis.

Dahlqvist J, Törmä H, Badhai J, Dahl N

PLoS ONE 7 (1) e29471 [2012-01-03; online 2012-01-03]

Affiliated researcher

PubMed DOI Crossref

The oxytocin/vasopressin receptor family has at least five members in the gnathostome lineage, inclucing two distinct V2 subtypes.

Ocampo Daza D, Lewicka M, Larhammar D

Gen. Comp. Endocrinol. 175 (1) 135-143 [2012-01-01; online 2011-10-28]

Affiliated researcher

PubMed DOI Crossref

The KCNQ1OT1 imprinting control region and non-coding RNA: new properties derived from the study of Beckwith-Wiedemann syndrome and Silver-Russell syndrome cases.

Chiesa N, De Crescenzo A, Mishra K, ..., Riccio A, Ferrero GB

Hum. Mol. Genet. 21 (1) 10-25 [2012-01-01; online 2011-09-14]

Affiliated researcher

PubMed DOI Crossref

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

Friedländer MR, Mackowiak SD, Li N, Chen W, Rajewsky N

Nucleic Acids Res. 40 (1) 37-52 [2012-01-00; online 2011-09-10]

Marc Friedländer SciLifeLab Fellow

PubMed DOI Crossref

Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages

Schmidt D, Schwalie PC, Wilson MD, ..., Flicek P, Odom DT

Cell 148 (1-2) 335-348 [2012-01-00; online 2012-01-00]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

The Pfam protein families database.

Punta M, Coggill PC, Eberhardt RY, ..., Bateman A, Finn RD

Nucleic Acids Res. 40 (Database issue) D290-D301 [2012-01-00; online 2011-11-29]

Affiliated researcher

PubMed DOI Crossref

Sequencing of high-complexity DNA pools for identification of nucleotide and structural variants in regions associated with complex traits.

Zaboli G, Ameur A, Igl W, ..., Gyllensten U, EUROSPAN Consortium

Eur. J. Hum. Genet. 20 (1) 77-83 [2012-01-00; online 2011-08-03]

Affiliated researcher

PubMed DOI Crossref

Role of Smads in TGFβ signaling.

Heldin CH, Moustakas A

Cell Tissue Res. 347 (1) 21-36 [2012-01-00; online 2011-06-04]

Affiliated researcher

PubMed DOI Crossref

Replication of GWAS-identified systemic lupus erythematosus susceptibility genes affirms B-cell receptor pathway signalling and strengthens the role of IRF5 in disease susceptibility in a Northern European population.

Järvinen TM, Hellquist A, Zucchelli M, ..., D'Amato M, Kere J

Rheumatology (Oxford) 51 (1) 87-92 [2012-01-00; online 2011-10-27]

Affiliated researcher

PubMed DOI Crossref

MRT letter: Nanoscopy of protein colocalization in living cells by STED and GSDIM

Lalkens B, Testa I, Willig KI, Hell SW

Microsc. Res. Tech. 75 (1) 1-6 [2012-01-00; online 2012-01-25]

Ilaria Testa SciLifeLab Fellow

PubMed DOI Crossref

Joint analysis of demography and selection in population genetics: where do we stand and where could we go?

Li J, Li H, Jakobsson M, ..., Sjödin P, Lascoux M

Mol. Ecol. 21 (1) 28-44 [2012-01-00; online 2011-10-14]

Affiliated researcher

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Inclusion of interactions in mathematical modelling of implant assisted magnetic drug targeting

Cregg PJ, Murphy K, Mardinoglu A

Applied Mathematical Modelling 36 (1) 1-34 [2012-01-00; online 2012-01-00]

Adil Mardinoglu SciLifeLab Fellow

PubMed DOI Crossref

Identification of a melanocyte-specific, microphthalmia-associated transcription factor-dependent regulatory element in the intronic duplication causing hair greying and melanoma in horses.

Sundström E, Komisarczuk AZ, Jiang L, ..., Becker TS, Andersson L

Pigment Cell Melanoma Res 25 (1) 28-36 [2012-01-00; online 2011-09-21]

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PubMed DOI Crossref

How selective sweeps in domestic animals provide new insight into biological mechanisms.

Andersson L

J. Intern. Med. 271 (1) 1-14 [2012-01-00; online 2011-09-22]

Affiliated researcher

PubMed DOI Crossref

Death of PRDM9 coincides with stabilization of the recombination landscape in the dog genome.

Axelsson E, Webster MT, Ratnakumar A, ..., Ponting CP, Lindblad-Toh K

Genome Res. 22 (1) 51-63 [2012-01-00; online 2011-10-17]

Affiliated researcher

PubMed DOI Crossref

Comparative interactomics with Funcoup 2.0.

Alexeyenko A, Schmitt T, Tjärnberg A, ..., Frings O, Sonnhammer EL

Nucleic Acids Res. 40 (Database issue) D821-D828 [2012-01-00; online 2011-11-21]

Affiliated researcher

PubMed DOI Crossref

Combining markers into haplotypes can improve population structure inference.

Gattepaille LM, Jakobsson M

Genetics 190 (1) 159-174 [2012-01-00; online 2011-08-25]

Affiliated researcher

PubMed DOI Crossref

A high density SNP array for the domestic horse and extant Perissodactyla: utility for association mapping, genetic diversity, and phylogeny studies.

McCue ME, Bannasch DL, Petersen JL, ..., Wade CM, Mickelson JR

PLoS Genet 8 (1) e1002451 [2012-01-00; online 2012-01-12]

Affiliated researcher

PubMed DOI Crossref

Signatures of balancing selection are maintained at disease resistance loci following mating system evolution and a population bottleneck in the genus Capsella

Gos G, Slotte T, Wright SI

BMC Evol Biol BMC Evolutionary Biology 12 (1) 152 [2012-00-00; online 2012-00-00]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Re-evaluating the Green versus Red Signal in Eukaryotes with Secondary Plastid of Red Algal Origin

Burki F, Flegontov P, Oborník M, ..., Lukeš J, Keeling PJ

Genome Biol Evol 4 (6) 626-635 [2012-00-00; online 2012-05-16]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Monitoring Conformational Dynamics with Single-Molecule Fluorescence Energy Transfer: Applications in Nucleosome Remodeling

Deindl S, Zhuang X

- 513 (-) 59-86 [2012-00-00; online 2012-00-00]

SciLifeLab Fellow Sebastian Deindl

PubMed DOI Crossref

Molecular Dynamics Simulations of Voltage-Gated Cation Channels: Insights on Voltage-Sensor Domain Function and Modulation

Delemotte L, Klein ML, Tarek M

Front. Pharmacol. 3 (-) - [2012-00-00; online 2012-00-00]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Pegylated liposomal doxorubicin as first-line monotherapy in elderly women with locally advanced or metastatic breast cancer: novel treatment predictive factors identified.

Green H, Stål O, Bachmeier K, ..., Åleskog A, Malmström A

Cancer Lett. 313 (2) 145-153 [2011-12-27; online 2011-08-31]

Affiliated researcher

PubMed DOI Crossref

Cdc6 expression represses E-cadherin transcription and activates adjacent replication origins.

Sideridou M, Zakopoulou R, Evangelou K, ..., Moustakas A, Gorgoulis VG

J. Cell Biol. 195 (7) 1123-1140 [2011-12-26; online 2011-12-28]

Affiliated researcher

PubMed DOI Crossref

Multiple polymorphisms affect expression and function of the neuropeptide S receptor (NPSR1).

Anedda F, Zucchelli M, Schepis D, ..., Kere J, D'Amato M

PLoS ONE 6 (12) e29523 [2011-12-21; online 2011-12-21]

Affiliated researcher

PubMed DOI Crossref

Assessing recent smoking status by measuring exhaled carbon monoxide levels.

Sandberg A, Sköld CM, Grunewald J, Eklund A, Wheelock ÅM

PLoS ONE 6 (12) e28864 [2011-12-16; online 2011-12-16]

Affiliated researcher

PubMed DOI Crossref

Regulation of myosin light chain function by BMP signaling controls actin cytoskeleton remodeling.

Konstantinidis G, Moustakas A, Stournaras C

Cell. Physiol. Biochem. 28 (5) 1031-1044 [2011-12-15; online 2011-12-15]

Affiliated researcher

PubMed

Association between body mass index and insulin receptor substrate-4 (IRS-4) gene polymorphisms in patients with schizophrenia.

Melkersson K, Persson B

Neuro Endocrinol. Lett. 32 (5) 634-640 [2011-12-15; online 2011-12-15]

Affiliated researcher

PubMed DOI Crossref

Striated muscle as implantation site for transplanted pancreatic islets.

Espes D, Eriksson O, Lau J, Carlsson PO

Journal of transplantation 2011 (-) 352043 [2011-12-07; online 2011-12-07]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Decreased defluorination using the novel beta-cell imaging agent [18F]FE-DTBZ-d4 in pigs examined by PET.

Jahan M, Eriksson O, Johnström P, ..., Johansson L, Halldin C

EJNMMI Res 1 (1) 33 [2011-12-05; online 2011-12-05]

Olof Eriksson SciLifeLab Fellow

DOI Crossref

A disposable and multifunctional capsule for easy operation of microfluidic elastomer systems

Thorslund S, Nguyen H, Läräng T, Barkefors I, Kreuger J

J. Micromech. Microeng. 21 (12) 127001 [2011-12-01; online 2011-11-24]

Affiliated researcher

PubMed DOI Crossref

The pharmacogenetics of metformin and its impact on plasma metformin steady-state levels and glycosylated hemoglobin A1c.

Christensen MM, Brasch-Andersen C, Green H, ..., Beck-Nielsen H, Brosen K

Pharmacogenet. Genomics 21 (12) 837-850 [2011-12-00; online 2011-10-13]

Affiliated researcher

PubMed DOI Crossref

The Conserved Foot Domain of RNA Pol II Associates with Proteins Involved in Transcriptional Initiation and/or Early Elongation

García-López MC, Pelechano V, Mirón-García MC, ..., Pérez-Ortín JE, Navarro F

Genetics 189 (4) 1235-1248 [2011-12-00; online 2011-09-27]

SciLifeLab Fellow Vicent Pelechano

PubMed DOI Crossref

Postpartum depressive symptoms and the BDNF Val66Met functional polymorphism: effect of season of delivery.

Comasco E, Sylvén SM, Papadopoulos FC, ..., Sundström-Poromaa I, Skalkidou A

Arch Womens Ment Health 14 (6) 453-463 [2011-12-00; online 2011-10-14]

Erika Comasco SciLifeLab Fellow

PubMed DOI Crossref

Pathway-based analysis of genetic susceptibility to cervical cancer in situ: HLA-DPB1 affects risk in Swedish women.

Ivansson EL, Juko-Pecirep I, Erlich HA, Gyllensten UB

Genes Immun. 12 (8) 605-614 [2011-12-00; online 2011-06-30]

Affiliated researcher

PubMed DOI Crossref

Microtubules support a disk-like septin arrangement at the plasma membrane of mammalian cells

Sellin ME, Holmfeldt P, Stenmark S, Gullberg M

MBoC 22 (23) 4588-4601 [2011-12-00; online 2011-12-00]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

High nuclear RBM3 expression is associated with an improved prognosis in colorectal cancer.

Hjelm B, Brennan DJ, Zendehrokh N, ..., Jirström K, Uhlen M

Proteomics Clin Appl 5 (11-12) 624-635 [2011-12-00; online 2011-10-01]

Affiliated researcher

PubMed DOI Crossref

Computational mass spectrometry-based proteomics.

Käll L, Vitek O

PLoS Comput Biol 7 (12) e1002277 [2011-12-00; online 2011-12-01]

Affiliated researcher

PubMed DOI Crossref

Colorimetric nucleic acid testing assay for RNA virus detection based on circle-to-circle amplification of padlock probes.

Ke R, Zorzet A, Göransson J, ..., Mirazimi A, Nilsson M

J. Clin. Microbiol. 49 (12) 4279-4285 [2011-12-00; online 2011-09-28]

Affiliated researcher

PubMed DOI Crossref

Autoregulation of the nonsense-mediated mRNA decay pathway in human cells.

Yepiskoposyan H, Aeschimann F, Nilsson D, Okoniewski M, Mühlemann O

RNA 17 (12) 2108-2118 [2011-12-00; online 2011-10-25]

Affiliated researcher

PubMed DOI Crossref

Adenovirus with hexon Tat-protein transduction domain modification exhibits increased therapeutic effect in experimental neuroblastoma and neuroendocrine tumors.

Yu D, Jin C, Leja J, ..., Eriksson F, Essand M

J. Virol. 85 (24) 13114-13123 [2011-12-00; online 2011-09-28]

Affiliated researcher

PubMed DOI Crossref

A complex genomic rearrangement involving the endothelin 3 locus causes dermal hyperpigmentation in the chicken.

Dorshorst B, Molin AM, Rubin CJ, ..., Ashwell C, Andersson L

PLoS Genet 7 (12) e1002412 [2011-12-00; online 2011-12-22]

Affiliated researcher

PubMed DOI Crossref

Counting absolute numbers of molecules using unique molecular identifiers.

Kivioja T, Vähärautio A, Karlsson K, ..., Linnarsson S, Taipale J

Nat. Methods 9 (1) 72-74 [2011-11-20; online 2011-11-20]

Affiliated researcher

PubMed DOI Crossref

Variance decomposition of protein profiles from antibody arrays using a longitudinal twin model.

Kato BS, Nicholson G, Neiman M, ..., Spector TD, Schwenk JM

Proteome Sci 9 (-) 73 [2011-11-17; online 2011-11-17]

Affiliated researcher

PubMed DOI Crossref

Genome sequencing reveals a phage in Helicobacter pylori.

Lehours P, Vale FF, Bjursell MK, ..., Engstrand L, Andersson AF

MBio 2 (6) - [2011-11-15; online 2011-11-15]

Affiliated researcher

PubMed DOI Crossref

Detection of rolling circle amplified DNA molecules using probe-tagged magnetic nanobeads in a portable AC susceptometer.

de la Torre TZ, Mezger A, Herthnek D, ..., Nilsson M, Strømme M

Biosens Bioelectron 29 (1) 195-199 [2011-11-15; online 2011-08-22]

Affiliated researcher

PubMed DOI Crossref

A lateral flow protein microarray for rapid and sensitive antibody assays.

Gantelius J, Bass T, Sjöberg R, Nilsson P, Andersson-Svahn H

Int J Mol Sci 12 (11) 7748-7759 [2011-11-09; online 2011-11-09]

Affiliated researcher

PubMed DOI Crossref

Archaic human ancestry in East Asia.

Skoglund P, Jakobsson M

Proc. Natl. Acad. Sci. U.S.A. 108 (45) 18301-18306 [2011-11-08; online 2011-10-31]

Affiliated researcher

PubMed DOI Crossref

Total RNA sequencing reveals nascent transcription and widespread co-transcriptional splicing in the human brain.

Ameur A, Zaghlool A, Halvardson J, ..., Cavelier L, Feuk L

Nat. Struct. Mol. Biol. 18 (12) 1435-1440 [2011-11-06; online 2011-11-06]

Affiliated researcher

PubMed DOI Crossref

Plasma profiling reveals human fibulin-1 as candidate marker for renal impairment.

Neiman M, Hedberg JJ, Dönnes PR, ..., Schwenk JM, Nilsson P

J. Proteome Res. 10 (11) 4925-4934 [2011-11-04; online 2011-09-29]

Affiliated researcher

PubMed DOI Crossref

Hypothalamic mitochondrial dysfunction associated with anorexia in the anx/anx mouse.

Lindfors C, Nilsson IA, Garcia-Roves PM, ..., Schalling M, Johansen JE

Proc. Natl. Acad. Sci. U.S.A. 108 (44) 18108-18113 [2011-11-01; online 2011-10-24]

Affiliated researcher

PubMed DOI Crossref

Fluorescence techniques to study lipid dynamics.

Sezgin E, Schwille P

Cold Spring Harbor Perspectives in Biology 3 (11) a009803 [2011-11-01; online 2011-11-01]

Erdinc Sezgin SciLifeLab Fellow

PubMed DOI Crossref

Western blotting via proximity ligation for high performance protein analysis.

Liu Y, Gu J, Hagner-McWhirter Å, ..., Ivansson D, Landegren U

Mol. Cell Proteomics 10 (11) O111.011031 [2011-11-00; online 2011-08-02]

Affiliated researcher

PubMed DOI Crossref

The Human Protein Atlas as a proteomic resource for biomarker discovery.

Pontén F, Schwenk JM, Asplund A, Edqvist PH

J. Intern. Med. 270 (5) 428-446 [2011-11-00; online 2011-08-03]

Affiliated researcher

PubMed DOI Crossref

Oncolytic viruses for the treatment of neuroendocrine tumors.

Essand M, Leja J, Giandomenico V, Oberg KE

Horm. Metab. Res. 43 (12) 877-883 [2011-11-00; online 2011-05-30]

Affiliated researcher

PubMed DOI Crossref

Oncolytic adenovirus modified with somatostatin motifs for selective infection of neuroendocrine tumor cells.

Leja J, Yu D, Nilsson B, ..., Giandomenico V, Essand M

Gene Ther. 18 (11) 1052-1062 [2011-11-00; online 2011-04-14]

Affiliated researcher

PubMed DOI Crossref

Ligand discovery from a dopamine D3 receptor homology model and crystal structure

Carlsson J, Coleman RG, Setola V, ..., Roth BL, Shoichet BK

Nat Chem Biol 7 (11) 769-778 [2011-11-00; online 2011-09-18]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Generation of monospecific antibodies based on affinity capture of polyclonal antibodies.

Hjelm B, Forsström B, Igel U, ..., Johansson C, Uhlén M

Protein Sci. 20 (11) 1824-1835 [2011-11-00; online 2011-10-12]

Affiliated researcher

PubMed DOI Crossref

Formulating a new basis for the treatment against botulinum neurotoxin intoxication: 3,4-Diaminopyridine prodrug design and characterization

Zakhari JS, Kinoyama I, Hixon MS, ..., Globisch D, Janda KD

Bioorganic & Medicinal Chemistry 19 (21) 6203-6209 [2011-11-00; online 2011-11-00]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

Comprehensive study of mtDNA among Southwest Asian dogs contradicts independent domestication of wolf, but implies dog-wolf hybridization.

Ardalan A, Kluetsch CF, Zhang AB, ..., Ashtiani SR, Savolainen P

Ecol Evol 1 (3) 373-385 [2011-11-00; online 2012-03-07]

Affiliated researcher

PubMed DOI Crossref

Allele-specific copy number analysis of tumor samples with aneuploidy and tumor heterogeneity.

Rasmussen M, Sundström M, Göransson Kultima H, ..., Glimelius B, Isaksson A

Genome Biol. 12 (10) R108 [2011-10-24; online 2011-10-24]

Affiliated researcher

PubMed DOI Crossref

A method for metagenomics of Helicobacter pylori from archived formalin-fixed gastric biopsies permitting longitudinal studies of carcinogenic risk.

Zheng Z, Andersson AF, Ye W, ..., Normark S, Engstrand L

PLoS ONE 6 (10) e26442 [2011-10-21; online 2011-10-21]

Affiliated researcher

PubMed DOI Crossref

Cancer associated epigenetic transitions identified by genome-wide histone methylation binding profiles in human colorectal cancer samples and paired normal mucosa.

Enroth S, Rada-Iglesisas A, Andersson R, ..., Komorowski J, Wadelius C

BMC Cancer 11 (-) 450 [2011-10-19; online 2011-10-19]

Affiliated researcher

PubMed DOI Crossref

Increased throughput of proteomics analysis by multiplexing high-resolution tandem mass spectra.

Ledvina AR, Savitski MM, Zubarev AR, ..., Coon JJ, Zubarev RA

Anal. Chem. 83 (20) 7651-7656 [2011-10-15; online 2011-09-28]

Affiliated researcher

PubMed DOI Crossref

MED12, the mediator complex subunit 12 gene, is mutated at high frequency in uterine leiomyomas.

Mäkinen N, Mehine M, Tolvanen J, ..., Vahteristo P, Aaltonen LA

Science 334 (6053) 252-255 [2011-10-14; online 2011-08-25]

Affiliated researcher

PubMed DOI Crossref

A high-resolution map of human evolutionary constraint using 29 mammals.

Lindblad-Toh K, Garber M, Zuk O, ..., Lander ES, Kellis M

Nature 478 (7370) 476-482 [2011-10-12; online 2011-10-12]

Affiliated researcher

PubMed DOI Crossref

Adenosine kinase deficiency disrupts the methionine cycle and causes hypermethioninemia, encephalopathy, and abnormal liver function.

Bjursell MK, Blom HJ, Cayuela JA, ..., Lundeberg J, Wedell A

Am. J. Hum. Genet. 89 (4) 507-515 [2011-10-07; online 2011-09-28]

Affiliated researcher

PubMed DOI Crossref

Rapid flow-sorting to simultaneously resolve multiplex massively parallel sequencing products.

Sandberg J, Werne B, Dessing M, Lundeberg J

Sci Rep 1 (-) 108 [2011-10-06; online 2011-10-06]

Affiliated researcher

PubMed DOI Crossref

Systems-Based Analysis of Modified tRNA Bases

Globisch D, Pearson D, Hienzsch A, ..., Sieber SA, Carell T

Angewandte Chemie International Edition 50 (41) 9739-9742 [2011-10-04; online 2011-08-31]

Daniel Globisch SciLifeLab Fellow

PubMed DOI Crossref

miR393 and Secondary siRNAs Regulate Expression of the TIR1/AFB2 Auxin Receptor Clade and Auxin-Related Development of Arabidopsis Leaves

Si-Ammour A, Windels D, Arn-Bouldoires E, ..., Meins F, Vazquez F

PLANT PHYSIOLOGY 157 (2) 683-691 [2011-10-01; online 2011-08-09]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Transitions in bacterial communities along the 2000 km salinity gradient of the Baltic Sea.

Herlemann DP, Labrenz M, Jürgens K, ..., Waniek JJ, Andersson AF

ISME J 5 (10) 1571-1579 [2011-10-00; online 2011-04-07]

Affiliated researcher

PubMed DOI Crossref

Pol III binding in six mammals shows conservation among amino acid isotypes despite divergence among tRNA genes

Kutter C, Brown GD, Gonçalves Â, ..., White RJ, Odom DT

Nat Genet 43 (10) 948-955 [2011-10-00; online 2011-08-28]

Claudia Kutter SciLifeLab Fellow

PubMed DOI Crossref

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity.

Song L, Zhang Z, Grasfeder LL, ..., Lieb JD, Furey TS

Genome Res. 21 (10) 1757-1767 [2011-10-00; online 2011-07-12]

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Metaxa: a software tool for automated detection and discrimination among ribosomal small subunit (12S/16S/18S) sequences of archaea, bacteria, eukaryotes, mitochondria, and chloroplasts in metagenomes and environmental sequencing datasets.

Bengtsson J, Eriksson KM, Hartmann M, ..., Rosenblad MA, Nilsson RH

Antonie Van Leeuwenhoek 100 (3) 471-475 [2011-10-00; online 2011-06-15]

DDLS Fellow Johan Bengtsson-Palme

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Impact of CYP3A5*3 and CYP2C8-HapC on paclitaxel/carboplatin-induced myelosuppression in patients with ovarian cancer.

Gréen H, Khan MS, Jakobsen-Falk I, Åvall-Lundqvist E, Peterson C

J Pharm Sci 100 (10) 4205-4209 [2011-10-00; online 2011-06-23]

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Identification of genomic regions associated with phenotypic variation between dog breeds using selection mapping.

Vaysse A, Ratnakumar A, Derrien T, ..., Hitte C, Webster MT

PLoS Genet 7 (10) e1002316 [2011-10-00; online 2011-10-13]

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Heme binding in gas-phase holo-myoglobin cations: distal becomes proximal?

Enyenihi AA, Yang H, Ytterberg AJ, Lyutvinskiy Y, Zubarev RA

J. Am. Soc. Mass Spectrom. 22 (10) 1763-1770 [2011-10-00; online 2011-07-19]

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Genome-wide association identifies nine common variants associated with fasting proinsulin levels and provides new insights into the pathophysiology of type 2 diabetes.

Strawbridge RJ, Dupuis J, Prokopenko I, ..., Hamsten A, Florez JC

Diabetes 60 (10) 2624-2634 [2011-10-00; online 2011-08-26]

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Fibroblast growth factor 10 haploinsufficiency causes chronic obstructive pulmonary disease.

Klar J, Blomstrand P, Brunmark C, ..., Bergendal B, Dahl N

J. Med. Genet. 48 (10) 705-709 [2011-10-00; online 2011-07-08]

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Enhanced information output from shotgun proteomics data by protein quantification and peptide quality control (PQPQ).

Forshed J, Johansson HJ, Pernemalm M, ..., Sandberg A, Lehtiö J

Mol. Cell Proteomics 10 (10) M111.010264 [2011-10-00; online 2011-07-06]

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Diffraction-unlimited all-optical imaging and writing with a photochromic GFP

Grotjohann T, Testa I, Leutenegger M, ..., Jakobs S, Hell SW

Nature 478 (7368) 204-208 [2011-10-00; online 2011-09-11]

Ilaria Testa SciLifeLab Fellow

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A reversibly photoswitchable GFP-like protein with fluorescence excitation decoupled from switching

Brakemann T, Stiel AC, Weber G, ..., Hell SW, Jakobs S

Nat Biotechnol 29 (10) 942-947 [2011-10-00; online 2011-09-11]

Ilaria Testa SciLifeLab Fellow

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ProteinSeq: high-performance proteomic analyses by proximity ligation and next generation sequencing.

Darmanis S, Nong RY, Vänelid J, ..., Kamali-Moghaddam M, Landegren U

PLoS ONE 6 (9) e25583 [2011-09-29; online 2011-09-29]

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High RBM3 expression in prostate cancer independently predicts a reduced risk of biochemical recurrence and disease progression.

Jonsson L, Gaber A, Ulmert D, ..., Bjartell A, Jirström K

Diagn Pathol 6 (-) 91 [2011-09-28; online 2011-09-28]

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Genomic determinants of protein evolution and polymorphism in Arabidopsis.

Slotte T, Bataillon T, Hansen TT, ..., Wright SI, Schierup MH

Genome Biol Evol 3 (-) 1210-1219 [2011-09-16; online 2011-09-16]

SciLifeLab Fellow Tanja Slotte

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A phylometagenomic exploration of oceanic alphaproteobacteria reveals mitochondrial relatives unrelated to the SAR11 clade.

Brindefalk B, Ettema TJ, Viklund J, Thollesson M, Andersson SG

PLoS ONE 6 (9) e24457 [2011-09-14; online 2011-09-14]

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Zebrafish Ext2 is necessary for Fgf and Wnt signaling, but not for Hh signaling.

Fischer S, Filipek-Gorniok B, Ledin J

BMC Dev. Biol. 11 (-) 53 [2011-09-05; online 2011-09-05]

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CK2 phosphorylation of XRCC1 facilitates dissociation from DNA and single-strand break formation during base excision repair.

Ström CE, Mortusewicz O, Finch D, ..., Dianov GL, Helleday T

DNA Repair (Amst.) 10 (9) 961-969 [2011-09-05; online 2011-08-15]

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Molecular Characteristics of ERCC1-Negative versus ERCC1-Positive Tumors in Resected NSCLC.

Friboulet L, Barrios-Gonzales D, Commo F, ..., André F, Soria JC

Clin. Cancer Res. 17 (17) 5562-5572 [2011-09-01; online 2011-07-12]

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Ecdysteroid receptor from the American lobster Homarus americanus: EcR/RXR isoform cloning and ligand-binding properties.

Tarrant AM, Behrendt L, Stegeman JJ, Verslycke T

Gen. Comp. Endocrinol. 173 (2) 346-355 [2011-09-01; online 2011-06-22]

Lars Behrendt SciLifeLab Fellow

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Understanding and Exploiting Information Spreading and Integrating Technologies

Holme P, Huss M

J. Comput. Sci. Technol. 26 (5) 829-836 [2011-09-00; online 2011-09-23]

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Penicillin-binding protein 5 can form a homo-oligomeric complex in the inner membrane of Escherichia coli.

Skoog K, Bruzell FS, Ducroux A, ..., Högbom M, Daley DO

Protein Sci. 20 (9) 1520-1529 [2011-09-00; online 2011-07-13]

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Mutations in or near the transmembrane domain alter PMEL amyloid formation from functional to pathogenic.

Watt B, Tenza D, Lemmon MA, ..., Andersson L, Marks MS

PLoS Genet 7 (9) e1002286 [2011-09-00; online 2011-09-15]

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Molecular subtypes of osteosarcoma identified by reducing tumor heterogeneity through an interspecies comparative approach.

Scott MC, Sarver AL, Gavin KJ, ..., Breen M, Modiano JF

Bone 49 (3) 356-367 [2011-09-00; online 2011-05-15]

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Letter to the editor: SeqXML and OrthoXML: standards for sequence and orthology information.

Schmitt T, Messina DN, Schreiber F, Sonnhammer EL

Brief. Bioinformatics 12 (5) 485-488 [2011-09-00; online 2011-06-11]

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Inactivation of Pmel alters melanosome shape but has only a subtle effect on visible pigmentation.

Hellström AR, Watt B, Fard SS, ..., Marks MS, Andersson L

PLoS Genet 7 (9) e1002285 [2011-09-00; online 2011-09-15]

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Deciphering the rules governing assembly order of mammalian septin complexes

Sellin ME, Sandblad L, Stenmark S, Gullberg M

MBoC 22 (17) 3152-3164 [2011-09-00; online 2011-09-00]

Mikael Sellin SciLifeLab Fellow

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The genome of the green anole lizard and a comparative analysis with birds and mammals.

Alföldi J, Di Palma F, Grabherr M, ..., Ponting CP, Lindblad-Toh K

Nature 477 (7366) 587-591 [2011-08-31; online 2011-08-31]

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The GC-Rich Mitochondrial and Plastid Genomes of the Green Alga Coccomyxa Give Insight into the Evolution of Organelle DNA Nucleotide Landscape

Smith DR, Burki F, Yamada T, ..., Van Etten JL, Keeling PJ

PLoS ONE 6 (8) e23624 [2011-08-26; online 2011-08-26]

Fabien Burki SciLifeLab Fellow

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Short-time repeat high-risk HPV testing by self-sampling for screening of cervical cancer.

Gyllensten U, Sanner K, Gustavsson I, ..., Wikström I, Wilander E

Br. J. Cancer 105 (5) 694-697 [2011-08-23; online 2011-08-02]

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Overexpression of podocalyxin-like protein is an independent factor of poor prognosis in colorectal cancer.

Larsson A, Johansson ME, Wangefjord S, ..., Uhlén M, Jirström K

Br. J. Cancer 105 (5) 666-672 [2011-08-23; online 2011-08-09]

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Three periods of regulatory innovation during vertebrate evolution.

Lowe CB, Kellis M, Siepel A, ..., Lindblad-Toh K, Haussler D

Science 333 (6045) 1019-1024 [2011-08-19; online 2011-08-20]

Affiliated researcher

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Titration-free 454 sequencing using Y adapters.

Zheng Z, Advani A, Melefors Ö, ..., Engstrand L, Andersson AF

Nat Protoc 6 (9) 1367-1376 [2011-08-18; online 2011-08-18]

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TGFβ-induced early activation of the small GTPase RhoA is Smad2/3-independent and involves Src and the guanine nucleotide exchange factor Vav2.

Papadimitriou E, Kardassis D, Moustakas A, Stournaras C

Cell. Physiol. Biochem. 28 (2) 229-238 [2011-08-16; online 2011-08-16]

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Genetic risk and a primary role for cell-mediated immune mechanisms in multiple sclerosis.

International Multiple Sclerosis Genetics Consortium , Wellcome Trust Case Control Consortium 2 , Sawcer S, ..., Donnelly P, Compston A

Nature 476 (7359) 214-219 [2011-08-10; online 2011-08-10]

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Delay-induced anomalous fluctuations in intracellular regulation.

Grönlund A, Lötstedt P, Elf J

Nat Commun 2 (-) 419 [2011-08-09; online 2011-08-09]

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Mapping the subcellular protein distribution in three human cell lines.

Fagerberg L, Stadler C, Skogs M, ..., Uhlén M, Lundberg E

J. Proteome Res. 10 (8) 3766-3777 [2011-08-05; online 2011-06-29]

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Domain architecture conservation in orthologs.

Forslund K, Pekkari I, Sonnhammer EL

BMC Bioinformatics 12 (-) 326 [2011-08-05; online 2011-08-05]

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Single-molecule investigations of the stringent response machinery in living bacterial cells.

English BP, Hauryliuk V, Sanamrad A, ..., Dekker NH, Elf J

Proc. Natl. Acad. Sci. U.S.A. 108 (31) E365-E373 [2011-08-02; online 2011-07-05]

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Apolar surface area determines the efficiency of translocon-mediated membrane-protein integration into the endoplasmic reticulum.

Öjemalm K, Higuchi T, Jiang Y, ..., Suga H, von Heijne G

Proc. Natl. Acad. Sci. U.S.A. 108 (31) E359-E364 [2011-08-02; online 2011-05-23]

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Influence of the COMT genotype on working memory and brain activity changes during development.

Dumontheil I, Roggeman C, Ziermans T, ..., Kere J, Klingberg T

Biol. Psychiatry 70 (3) 222-229 [2011-08-01; online 2011-04-22]

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Transition of microbial communities during the adaption to anaerobic digestion of carrot waste.

Garcia SL, Jangid K, Whitman WB, Das KC

Bioresour Technol 102 (15) 7249-7256 [2011-08-00; online 2011-05-06]

Sarahi Garcia SciLifeLab Fellow

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The underlying mechanism for the PARP and BRCA synthetic lethality: clearing up the misunderstandings.

Helleday T

Mol Oncol 5 (4) 387-393 [2011-08-00; online 2011-07-22]

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The short non-coding transcriptome of the protozoan parasite Trypanosoma cruzi.

Franzén O, Arner E, Ferella M, ..., Andersson B, Daub CO

PLoS Negl Trop Dis 5 (8) e1283 [2011-08-00; online 2011-08-30]

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Status of GPCR Modeling and Docking as Reflected by Community-wide GPCR Dock 2010 Assessment

Kufareva I, Rueda M, Katritch V, Stevens RC, Abagyan R

Structure 19 (8) 1108-1126 [2011-08-00; online 2011-08-00]

Jens Carlsson SciLifeLab Fellow

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LUPA: a European initiative taking advantage of the canine genome architecture for unravelling complex disorders in both human and dogs.

Lequarré AS, Andersson L, André C, ..., Lindblad-Toh K, Georges M

Vet. J. 189 (2) 155-159 [2011-08-00; online 2011-07-12]

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Effects of peptide backbone amide-to-ester bond substitution on the cleavage frequency in electron capture dissociation and collision-activated dissociation.

Kjeldsen F, Zubarev RA

J. Am. Soc. Mass Spectrom. 22 (8) 1441-1452 [2011-08-00; online 2011-05-05]

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Distribution of adoptively transferred porcine T-lymphoblasts tracked by (18)F-2-fluoro-2-deoxy-D-glucose and position emission tomography.

Eriksson O, Sadeghi A, Carlsson B, ..., Korsgren O, Sundin A

Nucl. Med. Biol. 38 (6) 827-833 [2011-08-00; online 2011-04-21]

Olof Eriksson SciLifeLab Fellow

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Differentially expressed genes in hypothalamus in relation to genomic regions under selection in two chicken lines resulting from divergent selection for high or low body weight.

Ka S, Albert FW, Denbow DM, ..., Andersson L, Hallböök F

Neurogenetics 12 (3) 211-221 [2011-08-00; online 2011-07-12]

Affiliated researcher

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Contrasting demographic history and population structure in Capsella rubella and Capsella grandiflora, two closely related species with different mating systems.

St Onge KR, Källman T, Slotte T, Lascoux M, Palmé AE

Mol. Ecol. 20 (16) 3306-3320 [2011-08-00; online 2011-07-21]

SciLifeLab Fellow Tanja Slotte

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A screening method for phosphohistidine phosphatase 1 activity.

Beckman-Sundh U, Ek B, Zetterqvist O, Ek P

Ups. J. Med. Sci. 116 (3) 161-168 [2011-08-00; online 2011-06-17]

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A genomic view of mRNA turnover in yeast

Pérez-Ortín JE, Jordán-Pla A, Pelechano V

Comptes Rendus Biologies 334 (8-9) 647-654 [2011-08-00; online 2011-08-00]

SciLifeLab Fellow Vicent Pelechano

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Increased recruitment but impaired function of leukocytes during inflammation in mouse models of type 1 and type 2 diabetes.

Pettersson US, Christoffersson G, Massena S, ..., Henriksnäs J, Phillipson M

PLoS ONE 6 (7) e22480 [2011-07-25; online 2011-07-25]

Gustaf Christoffersson SciLifeLab Fellow

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Low RBM3 protein expression correlates with tumour progression and poor prognosis in malignant melanoma: an analysis of 215 cases from the Malmö Diet and Cancer Study.

Jonsson L, Bergman J, Nodin B, ..., Uhlén M, Jirström K

J Transl Med 9 (-) 114 [2011-07-21; online 2011-07-21]

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FAAST: Flow-space Assisted Alignment Search Tool.

Lysholm F, Andersson B, Persson B

BMC Bioinformatics 12 (-) 293 [2011-07-19; online 2011-07-19]

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Alzheimer's disease and mild cognitive impairment are associated with elevated levels of isoaspartyl residues in blood plasma proteins.

Yang H, Lyutvinskiy Y, Soininen H, Zubarev RA

J. Alzheimers Dis. 27 (1) 113-118 [2011-07-19; online 2011-07-19]

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Flanking residues help determine whether a hydrophobic segment adopts a monotopic or bitopic topology in the endoplasmic reticulum membrane.

Nørholm MH, Shulga YV, Aoki S, Epand RM, von Heijne G

J. Biol. Chem. 286 (28) 25284-25290 [2011-07-15; online 2011-05-23]

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5-Hydroxymethylcytosine, the Sixth Base of the Genome

Münzel M, Globisch D, Carell T

Angewandte Chemie International Edition 50 (29) 6460-6468 [2011-07-11; online 2011-06-17]

Daniel Globisch SciLifeLab Fellow

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Exocyst complex component 3-like 2 (EXOC3L2) associates with the exocyst complex and mediates directional migration of endothelial cells.

Barkefors I, Fuchs PF, Heldin J, ..., Forsberg-Nilsson K, Kreuger J

J. Biol. Chem. 286 (27) 24189-24199 [2011-07-08; online 2011-05-12]

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Scalable transcriptome preparation for massive parallel sequencing.

Stranneheim H, Werne B, Sherwood E, Lundeberg J

PLoS ONE 6 (7) e21910 [2011-07-07; online 2011-07-07]

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Thrombospondin-1: an islet endothelial cell signal of importance for β-cell function.

Olerud J, Mokhtari D, Johansson M, ..., Welsh N, Carlsson PO

Diabetes 60 (7) 1946-1954 [2011-07-00; online 2011-05-26]

Gustaf Christoffersson SciLifeLab Fellow

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Sequence scrambling in shotgun proteomics is negligible.

Goloborodko AA, Gorshkov MV, Good DM, Zubarev RA

J. Am. Soc. Mass Spectrom. 22 (7) 1121-1124 [2011-07-00; online 2011-04-15]

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Refining tumor-associated aneuploidy through 'genomic recoding' of recurrent DNA copy number aberrations in 150 canine non-Hodgkin lymphomas.

Thomas R, Seiser EL, Motsinger-Reif A, ..., Modiano JF, Breen M

Leuk. Lymphoma 52 (7) 1321-1335 [2011-07-00; online 2011-03-07]

Affiliated researcher

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Molecular genetics and molecular biology of dyslexia.

Kere J

Wiley Interdiscip Rev Cogn Sci 2 (4) 441-448 [2011-07-00; online 2011-02-03]

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Modularity of the Bacterial Cell Cycle Enables Independent Spatial and Temporal Control of DNA Replication

Jonas K, Chen YE, Laub MT

Current Biology 21 (13) 1092-1101 [2011-07-00; online 2011-07-00]

Kristina Jonas SciLifeLab Fellow

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LGI2 truncation causes a remitting focal epilepsy in dogs.

Seppälä EH, Jokinen TS, Fukata M, ..., Minassian BA, Lohi H

PLoS Genet 7 (7) e1002194 [2011-07-00; online 2011-07-28]

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Isolated oligodontia associated with mutations in EDARADD, AXIN2, MSX1, and PAX9 genes.

Bergendal B, Klar J, Stecksén-Blicks C, Norderyd J, Dahl N

Am. J. Med. Genet. A 155A (7) 1616-1622 [2011-07-00; online 2011-05-27]

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Functional consequences of bidirectional promoters

Wei W, Pelechano V, Järvelin AI, Steinmetz LM

Trends in Genetics 27 (7) 267-276 [2011-07-00; online 2011-07-00]

SciLifeLab Fellow Vicent Pelechano

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CoMet--a web server for comparative functional profiling of metagenomes.

Lingner T, Asshauer KP, Schreiber F, Meinicke P

Nucleic Acids Res. 39 (Web Server issue) W518-W523 [2011-07-00; online 2011-05-26]

Affiliated researcher

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Both CD4+ FoxP3+ and CD4+ FoxP3- T cells from patients with B-cell malignancy express cytolytic markers and kill autologous leukaemic B cells in vitro.

Lindqvist CA, Christiansson LH, Thörn I, ..., Olsson-Strömberg U, Loskog AS

Immunology 133 (3) 296-306 [2011-07-00; online 2011-04-05]

Affiliated researcher

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Automated classification of multicolored rolling circle products in dual-channel wide-field fluorescence microscopy.

Gavrilovic M, Weibrecht I, Conze T, Söderberg O, Wählby C

Cytometry A 79 (7) 518-527 [2011-07-00; online 2011-06-10]

Affiliated researcher

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Genome wide association study identifies KCNMA1 contributing to human obesity.

Jiao H, Arner P, Hoffstedt J, ..., Clement K, Dahlman I

BMC Med Genomics 4 (-) 51 [2011-06-28; online 2011-06-28]

Affiliated researcher

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The asthma candidate gene NPSR1 mediates isoform specific downstream signalling.

Pietras CO, Vendelin J, Anedda F, ..., Söderhäll C, Kere J

BMC Pulm Med 11 (-) 39 [2011-06-27; online 2011-06-27]

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A frameshift mutation in golden retriever dogs with progressive retinal atrophy endorses SLC4A3 as a candidate gene for human retinal degenerations.

Downs LM, Wallin-Håkansson B, Boursnell M, ..., Bergström T, Mellersh CS

PLoS ONE 6 (6) e21452 [2011-06-27; online 2011-06-27]

Affiliated researcher

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Genetic variation near IRS1 associates with reduced adiposity and an impaired metabolic profile.

Kilpeläinen TO, Zillikens MC, Stančákova A, ..., Laakso M, Loos RJ

Nat. Genet. 43 (8) 753-760 [2011-06-26; online 2011-06-26]

Affiliated researcher

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Translational database selection and multiplexed sequence capture for up front filtering of reliable breast cancer biomarker candidates.

Ståhl PL, Bjursell MK, Mahdessian H, ..., Jirström K, Lundeberg J

PLoS ONE 6 (6) e20794 [2011-06-15; online 2011-06-15]

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Mutations in Frizzled 6 cause isolated autosomal-recessive nail dysplasia.

Fröjmark AS, Schuster J, Sobol M, ..., Klar J, Dahl N

Am. J. Hum. Genet. 88 (6) 852-860 [2011-06-10; online 2011-06-15]

Affiliated researcher

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Identification of chromatophore membrane protein complexes formed under different nitrogen availability conditions in Rhodospirillum rubrum.

Selao TT, Branca R, Chae PS, ..., Nordlund S, Norén A

J. Proteome Res. 10 (6) 2703-2714 [2011-06-03; online 2011-04-26]

Affiliated researcher

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Nanosilver on nanostructured silica: Antibacterial activity and Ag surface area.

Sotiriou GA, Teleki A, Camenzind A, ..., Panke S, Pratsinis SE

Chem Eng J 170 (2-3) 547-554 [2011-06-01; online 2011-06-01]

Alexandra Teleki SciLifeLab Fellow

PubMed DOI Crossref

Nucleus- and nucleomorph-targeted histone proteins in a chlorarachniophyte alga

Hirakawa Y, Burki F, Keeling PJ

Molecular Microbiology 80 (6) 1439-1449 [2011-06-00; online 2011-04-06]

Fabien Burki SciLifeLab Fellow

PubMed DOI Crossref

Membrane proteins: from bench to bits.

von Heijne G

Biochem. Soc. Trans. 39 (3) 747-750 [2011-06-00; online 2011-05-24]

Affiliated researcher

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Genetic association and gene expression analysis identify FGFR1 as a new susceptibility gene for human obesity.

Jiao H, Arner P, Dickson SL, ..., Clement K, Dahlman I

J. Clin. Endocrinol. Metab. 96 (6) E962-E966 [2011-06-00; online 2011-03-23]

Affiliated researcher

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Endolithic chlorophyll d-containing phototrophs.

Behrendt L, Larkum AW, Norman A, ..., Trampe E, Kühl M

ISME J 5 (6) 1072-1076 [2011-06-00; online 2010-12-16]

Lars Behrendt SciLifeLab Fellow

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Association of the HLA-G gene +3142C>G polymorphism with systemic lupus erythematosus.

Consiglio CR, Veit TD, Monticielo OA, ..., Brenol JC, Chies JA

Tissue Antigens 77 (6) 540-545 [2011-06-00; online 2011-03-14]

Camila Consiglio DDLS Fellow

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Detailed analysis of variants in FTO in association with body composition in a cohort of 70-year-olds suggests a weakened effect among elderly.

Jacobsson JA, Almén MS, Benedict C, ..., Lind L, Schiöth HB

PLoS ONE 6 (5) e20158 [2011-05-27; online 2011-05-27]

Affiliated researcher

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Simultaneous visualization of both signaling cascade activity and end-point gene expression in single cells.

Weibrecht I, Grundberg I, Nilsson M, Söderberg O

PLoS ONE 6 (5) e20148 [2011-05-25; online 2011-05-25]

Affiliated researcher

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The zebrafish transcriptome during early development.

Vesterlund L, Jiao H, Unneberg P, Hovatta O, Kere J

BMC Dev. Biol. 11 (-) 30 [2011-05-24; online 2011-05-24]

Affiliated researcher

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Quantitative analysis of transient and sustained transforming growth factor-β signaling dynamics.

Zi Z, Feng Z, Chapnick DA, ..., Moustakas A, Liu X

Mol Syst Biol 7 (-) 492 [2011-05-24; online 2011-05-27]

Affiliated researcher

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Multiple recognition assay reveals prostasomes as promising plasma biomarkers for prostate cancer.

Tavoosidana G, Ronquist G, Darmanis S, ..., Landegren UD, Kamali-Moghaddam M

Proc. Natl. Acad. Sci. U.S.A. 108 (21) 8809-8814 [2011-05-24; online 2011-05-09]

Affiliated researcher

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Rapid screening of complex DNA samples by single-molecule amplification and sequencing.

Huang J, Zheng Z, Andersson AF, Engstrand L, Ye W

PLoS ONE 6 (5) e19723 [2011-05-19; online 2011-05-19]

Affiliated researcher

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The Trypanosoma cruzi genome; conserved core genes and extremely variable surface molecule families.

Andersson B

Res. Microbiol. 162 (6) 619-625 [2011-05-18; online 2011-05-18]

Affiliated researcher

PubMed DOI Crossref

Full-length transcriptome assembly from RNA-Seq data without a reference genome.

Grabherr MG, Haas BJ, Yassour M, ..., Friedman N, Regev A

Nat. Biotechnol. 29 (7) 644-652 [2011-05-15; online 2011-05-15]

Affiliated researcher

PubMed DOI Crossref

Comprehensive assessment of array-based platforms and calling algorithms for detection of copy number variants.

Pinto D, Darvishi K, Shi X, ..., Scherer SW, Feuk L

Nat. Biotechnol. 29 (6) 512-520 [2011-05-08; online 2011-05-08]

Affiliated researcher

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Phosphoproteomic profiling of NSCLC cells reveals that ephrin B3 regulates pro-survival signaling through Akt1-mediated phosphorylation of the EphA2 receptor.

Ståhl S, Branca RM, Efazat G, ..., Viktorsson K, Lehtiö J

J. Proteome Res. 10 (5) 2566-2578 [2011-05-06; online 2011-04-11]

Affiliated researcher

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Atmospheric reaction systems as null-models to identify structural traces of evolution in metabolism.

Holme P, Huss M, Lee SH

PLoS ONE 6 (5) e19759 [2011-05-06; online 2011-05-06]

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Characterization of NPY Y2 receptor protein expression in the mouse brain. II. Coexistence with NPY, the Y1 receptor, and other neurotransmitter-related molecules.

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Large scale library generation for high throughput sequencing.

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Maddalo G, Stenberg-Bruzell F, Götzke H, ..., Ilag LL, Daley DO

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Nilsson KW, Comasco E, Åslund C, ..., Leppert J, Oreland L

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Herascu N, Najafi M, Amunts A, ..., Seibert M, Zazubovich V

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5'UTR variants of ribosomal protein S19 transcript determine translational efficiency: implications for Diamond-Blackfan anemia and tissue variability.

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PLoS ONE 6 (3) e17672 [2011-03-11; online 2011-03-11]

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Decoding a substantial set of samples in parallel by massive sequencing.

Neiman M, Lundin S, Savolainen P, Ahmadian A

PLoS ONE 6 (3) e17785 [2011-03-09; online 2011-03-09]

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Shotgun sequencing analysis of Trypanosoma cruzi I Sylvio X10/1 and comparison with T. cruzi VI CL Brener.

Franzén O, Ochaya S, Sherwood E, ..., Miles MA, Andersson B

PLoS Negl Trop Dis 5 (3) e984 [2011-03-08; online 2011-03-08]

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Cancer. New epigenetic drivers of cancers.

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Ameur A, Stewart JB, Freyer C, ..., Larsson NG, Gyllensten U

PLoS Genet 7 (3) e1002028 [2011-03-00; online 2011-03-24]

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Ayoglu B, Häggmark A, Neiman M, ..., Schwenk JM, Nilsson P

Expert Rev. Mol. Diagn. 11 (2) 219-234 [2011-03-00; online 2011-03-17]

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Maltreatment, MAOA, and delinquency: sex differences in gene-environment interaction in a large population-based cohort of adolescents.

Aslund C, Nordquist N, Comasco E, ..., Oreland L, Nilsson KW

Behav. Genet. 41 (2) 262-272 [2011-03-00; online 2010-08-24]

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Montagud A, Zelezniak A, Navarro E, ..., Urchueguía JF, Patil KR

Biotechnology Journal 6 (3) 330-342 [2011-03-00; online 2011-01-11]

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A novel unstable duplication upstream of HAS2 predisposes to a breed-defining skin phenotype and a periodic fever syndrome in Chinese Shar-Pei dogs.

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PLoS Genet 7 (3) e1001332 [2011-03-00; online 2011-03-17]

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Improved predictions by Pcons.net using multiple templates.

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Theoretical modelling of physiologically stretched vessel in magnetisable stent assisted magnetic drug targeting application

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Neurogenetics 12 (1) 65-72 [2011-02-00; online 2011-01-12]

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Spatial distribution of Na+-K+-ATPase in dendritic spines dissected by nanoscale superresolution STED microscopy.

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miR-182-mediated downregulation of BRCA1 impacts DNA repair and sensitivity to PARP inhibitors.

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Mol. Cell 41 (2) 210-220 [2011-01-21; online 2010-12-30]

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Spatial gradient of protein phosphorylation underlies replicative asymmetry in a bacterium

Chen YE, Tropini C, Jonas K, ..., Huang KC, Laub MT

Proceedings of the National Academy of Sciences 108 (3) 1052-1057 [2011-01-18; online 2010-12-29]

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An unbiased metagenomic search for infectious agents using monozygotic twins discordant for chronic fatigue.

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BMC Microbiol. 11 (-) 2 [2011-01-02; online 2011-01-02]

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Reduced Efficacy of Natural Selection on Codon Usage Bias in Selfing Arabidopsis and Capsella Species

Qiu S, Zeng K, Slotte T, Wright S, Charlesworth D

Genome Biol Evol 3 (-) 868-880 [2011-01-01; online 2011-08-18]

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Structural dependence of the efficiency of functionalization of silica-coated FeOx magnetic nanoparticles studied by ATR-IR

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Applied Surface Science 257 (7) 2861-2869 [2011-01-00; online 2011-01-00]

Alexandra Teleki SciLifeLab Fellow

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SNP variations in the 7q33 region containing DGKI are associated with dyslexia in the Finnish and German populations.

Matsson H, Tammimies K, Zucchelli M, ..., Kere J, Peyrard-Janvid M

Behav. Genet. 41 (1) 134-140 [2011-01-00; online 2011-01-04]

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Morphology, structure and magnetic properties of cobalt–nickel films obtained from acidic electrolytes containing glycine

Ergeneman O, Sivaraman KM, Pané S, ..., Baró MD, Nelson BJ

Electrochimica Acta 56 (3) 1399-1408 [2011-01-00; online 2011-01-00]

Alexandra Teleki SciLifeLab Fellow

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BioTechniques 50 (1) 27-31 [2011-01-00; online 2011-01-15]

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Anti-apoptotic Bcl-2 fails to form efficient complexes with pro-apoptotic Bak to protect from Celecoxib-induced apoptosis

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Biochemical Pharmacology 81 (1) 32-42 [2011-01-00; online 2011-01-00]

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LC-MS based quantification of 2′-ribosylated nucleosides Ar(p) and Gr(p) in tRNA

Pearson D, Hienzsch A, Wagner M, ..., Özden D, Carell T

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Paraneoplastic antigen Ma2 autoantibodies as specific blood biomarkers for detection of early recurrence of small intestine neuroendocrine tumors.

Cui T, Hurtig M, Elgue G, ..., Öberg K, Giandomenico V

PLoS ONE 5 (12) e16010 [2010-12-30; online 2010-12-30]

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Tissue Distribution of 5-Hydroxymethylcytosine and Search for Active Demethylation Intermediates

Globisch D, Münzel M, Müller M, ..., Biel M, Carell T

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Daniel Globisch SciLifeLab Fellow

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Non-toxic dry-coated nanosilver for plasmonic biosensors.

Sotiriou GA, Sannomiya T, Teleki A, ..., Vörös J, Pratsinis SE

Adv. Funct. Mater. 20 (24) 4250-4257 [2010-12-21; online 2010-12-21]

Alexandra Teleki SciLifeLab Fellow

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Defining the transcriptome and proteome in three functionally different human cell lines.

Lundberg E, Fagerberg L, Klevebring D, ..., Mann M, Uhlen M

Mol Syst Biol 6 (-) 450 [2010-12-21; online 2010-12-24]

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Efficient Synthesis of 5-Hydroxymethylcytosine Containing DNA

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Org. Lett. 12 (24) 5671-5673 [2010-12-17; online 2010-12-17]

Daniel Globisch SciLifeLab Fellow

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The SNAP25 gene is linked to working memory capacity and maturation of the posterior cingulate cortex during childhood.

Söderqvist S, McNab F, Peyrard-Janvid M, ..., Kere J, Klingberg T

Biol. Psychiatry 68 (12) 1120-1125 [2010-12-15; online 2010-10-15]

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Analysis of transcript and protein overlap in a human osteosarcoma cell line.

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BMC Genomics 11 (-) 684 [2010-12-02; online 2010-12-02]

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RNAs actively cycle on the Sm-like protein Hfq.

Fender A, Elf J, Hampel K, Zimmermann B, Wagner EG

Genes Dev. 24 (23) 2621-2626 [2010-12-01; online 2010-12-03]

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A pyrosequencing study in twins shows that gastrointestinal microbial profiles vary with inflammatory bowel disease phenotypes.

Willing BP, Dicksved J, Halfvarson J, ..., Jansson JK, Engstrand L

Gastroenterology 139 (6) 1844-1854.e1 [2010-12-00; online 2010-10-08]

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High resolution mapping and positional cloning of ENU-induced mutations in the Rw region of mouse chromosome 5.

Ching YH, Munroe RJ, Moran JL, ..., Stover PJ, Schimenti JC

BMC Genet. 11 (-) 106 [2010-11-30; online 2010-11-30]

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Stochastic reaction-diffusion kinetics in the microscopic limit.

Fange D, Berg OG, Sjöberg P, Elf J

Proc. Natl. Acad. Sci. U.S.A. 107 (46) 19820-19825 [2010-11-16; online 2010-11-01]

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A Complete Set of Nascent Transcription Rates for Yeast Genes

Pelechano V, Chávez S, Pérez-Ortín JE

PLoS ONE 5 (11) e15442 [2010-11-16; online 2010-11-16]

SciLifeLab Fellow Vicent Pelechano

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A Novel Synthetic Route for the Anti-HIV Drug MC-1220 and its Analogues

Loksha YM, Globisch D, Loddo R, ..., La Colla P, Pedersen EB

ChemMedChem 5 (11) 1847-1849 [2010-11-08; online 2010-08-16]

Daniel Globisch SciLifeLab Fellow

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Heat shock transcription factor 1 localizes to sex chromatin during meiotic repression.

Akerfelt M, Vihervaara A, Laiho A, ..., Sistonen L, Henriksson E

J Biol Chem 285 (45) 34469-34476 [2010-11-05; online 2010-08-27]

Anniina Vihervaara SciLifeLab Fellow

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Incorporation of Mg and Ca into nanostructured Fe2O3 improves Fe solubility in dilute acid and sensory characteristics in foods.

Hilty FM, Knijnenburg JT, Teleki A, ..., Pratsinis SE, Zimmermann MB

J Food Sci 76 (1) N2-10 [2010-11-04; online 2010-11-04]

Alexandra Teleki SciLifeLab Fellow

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Schwenk JM, Igel U, Neiman M, ..., Nilsson P, Uhlen M

Mol. Cell Proteomics 9 (11) 2497-2507 [2010-11-00; online 2010-08-03]

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Effect of Sensor Domain Mutations on the Properties of Voltage-Gated Ion Channels: Molecular Dynamics Studies of the Potassium Channel Kv1.2

Delemotte L, Treptow W, Klein ML, Tarek M

Biophysical Journal 99 (9) L72-L74 [2010-11-00; online 2010-11-00]

Lucie Delemotte SciLifeLab Fellow

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Nat. Genet. 42 (11) 985-990 [2010-11-00; online 2010-10-17]

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Bierwagen J, Testa I, Fölling J, ..., Eggeling C, Hell SW

Nano Lett. 10 (10) 4249-4252 [2010-10-13; online 2010-10-13]

Ilaria Testa SciLifeLab Fellow

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Angew. Chem. Int. Ed. Engl. 49 (42) 7632-7659 [2010-10-11; online 2010-08-19]

Alexandra Teleki SciLifeLab Fellow

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Jerlström-Hultqvist J, Franzén O, Ankarklev J, ..., Svärd SG, Andersson B

BMC Genomics 11 (-) 543 [2010-10-07; online 2010-10-07]

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Arch Womens Ment Health 13 (5) 417-423 [2010-10-00; online 2010-05-04]

Erika Comasco SciLifeLab Fellow

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Multicolor Fluorescence Nanoscopy in Fixed and Living Cells by Exciting Conventional Fluorophores with a Single Wavelength

Testa I, Wurm CA, Medda R, ..., Hell SW, Eggeling C

Biophysical Journal 99 (8) 2686-2694 [2010-10-00; online 2010-10-00]

Ilaria Testa SciLifeLab Fellow

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Clinical and experimental pancreatic islet transplantation to striated muscle: establishment of a vascular system similar to that in native islets.

Christoffersson G, Henriksnäs J, Johansson L, ..., Carlsson PO, Phillipson M

Diabetes 59 (10) 2569-2578 [2010-10-00; online 2010-07-22]

Gustaf Christoffersson SciLifeLab Fellow

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Light entrained rhythmic gene expression in the sea anemone Nematostella vectensis: the evolution of the animal circadian clock.

Reitzel AM, Behrendt L, Tarrant AM

PLoS ONE 5 (9) e12805 [2010-09-21; online 2010-09-21]

Lars Behrendt SciLifeLab Fellow

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A chemotactic gradient sequestered on endothelial heparan sulfate induces directional intraluminal crawling of neutrophils.

Massena S, Christoffersson G, Hjertström E, ..., Li JP, Phillipson M

Blood 116 (11) 1924-1931 [2010-09-16; online 2010-06-08]

Gustaf Christoffersson SciLifeLab Fellow

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Chk1 promotes replication fork progression by controlling replication initiation.

Petermann E, Woodcock M, Helleday T

Proc. Natl. Acad. Sci. U.S.A. 107 (37) 16090-16095 [2010-09-14; online 2010-08-30]

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Lung cancer proteomics, clinical and technological considerations.

Lehtiö J, De Petris L

J Proteomics 73 (10) 1851-1863 [2010-09-10; online 2010-06-01]

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Substance graphs are optimal simple-graph representations of metabolism

Holme P, Huss M

Chin. Sci. Bull. 55 (27-28) 3161-3168 [2010-09-00; online 2010-10-14]

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Introduction into the analysis of high-throughput-sequencing based epigenome data.

Huss M

Brief. Bioinformatics 11 (5) 512-523 [2010-09-00; online 2010-05-10]

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Daxx is an H3.3-specific histone chaperone and cooperates with ATRX in replication-independent chromatin assembly at telomeres

Lewis PW, Elsaesser SJ, Noh KM, Stadler SC, Allis CD

Proceedings of the National Academy of Sciences 107 (32) 14075-14080 [2010-08-10; online 2010-07-22]

SciLifeLab Fellow Simon Elsässer

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Genome-Wide Evidence for Efficient Positive and Purifying Selection in Capsella grandiflora, a Plant Species with a Large Effective Population Size

Slotte T, Foxe JP, Hazzouri KM, Wright SI

Molecular Biology and Evolution 27 (8) 1813-1821 [2010-08-01; online 2010-03-01]

SciLifeLab Fellow Tanja Slotte

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6-thioguanine selectively kills BRCA2-defective tumors and overcomes PARP inhibitor resistance.

Issaeva N, Thomas HD, Djureinovic T, ..., Curtin NJ, Helleday T

Cancer Res. 70 (15) 6268-6276 [2010-08-01; online 2010-07-14]

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Why do adolescents drink? Motivational patterns related to alcohol consumption and alcohol-related problems.

Comasco E, Berglund K, Oreland L, Nilsson KW

Subst Use Misuse 45 (10) 1589-1604 [2010-08-00; online 2010-07-02]

Erika Comasco SciLifeLab Fellow

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The distribution of active RNA polymerase II along the transcribed region is gene-specific and controlled by elongation factors

Rodríguez-Gil A, García-Martínez J, Pelechano V, ..., Pérez-Ortín JE, Chávez S

Nucleic Acids Res. 38 (14) 4651-4664 [2010-08-00; online 2010-04-10]

SciLifeLab Fellow Vicent Pelechano

DOI Crossref

Many particle magnetic dipole–dipole and hydrodynamic interactions in magnetizable stent assisted magnetic drug targeting

Cregg PJ, Murphy K, Mardinoglu A, Prina-Mello A

Journal of Magnetism and Magnetic Materials 322 (15) 2087-2094 [2010-08-00; online 2010-08-00]

Adil Mardinoglu SciLifeLab Fellow

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Replication-biased genome organisation in the crenarchaeon Sulfolobus.

Andersson AF, Pelve EA, Lindeberg S, ..., Nilsson P, Bernander R

BMC Genomics 11 (-) 454 [2010-07-28; online 2010-07-28]

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DOI Crossref

Impacts of added dissolved organic carbon on boreal freshwater pelagic metabolism and food webs in mesocosm experiments

Kankaala P, Peura S, Nykänen H, ..., Tiirola M, Jones RI

Fund. App. Lim. 177 (3) 161-176 [2010-07-09; online 2010-07-09]

Sari Peura SciLifeLab Fellow

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Dynamics of HIV-1 quasispecies during antiviral treatment dissected using ultra-deep pyrosequencing.

Hedskog C, Mild M, Jernberg J, ..., Andersson B, Albert J

PLoS ONE 5 (7) e11345 [2010-07-07; online 2010-07-07]

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Classification of DNA sequences using Bloom filters.

Stranneheim H, Käller M, Allander T, ..., Arvestad L, Lundeberg J

Bioinformatics 26 (13) 1595-1600 [2010-07-01; online 2010-05-13]

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Upregulated Op18/stathmin activity causes chromosomal instability through a mechanism that evades the spindle assembly checkpoint

Holmfeldt P, Sellin ME, Gullberg M

Experimental Cell Research 316 (12) 2017-2026 [2010-07-00; online 2010-07-00]

Mikael Sellin SciLifeLab Fellow

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Quantification of the Sixth DNA Base Hydroxymethylcytosine in the Brain

Münzel M, Globisch D, Brückl T, ..., Biel M, Carell T

Angewandte Chemie International Edition 49 (31) 5375-5377 [2010-06-25; online 2010-06-25]

Daniel Globisch SciLifeLab Fellow

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Control of membrane protein topology by a single C-terminal residue.

Seppälä S, Slusky JS, Lloris-Garcerá P, Rapp M, von Heijne G

Science 328 (5986) 1698-1700 [2010-06-25; online 2010-05-27]

Affiliated researcher

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Induction of cytochrome P450 1 genes and stress response genes in developing zebrafish exposed to ultraviolet radiation.

Behrendt L, Jönsson ME, Goldstone JV, Stegeman JJ

Aquat Toxicol 98 (1) 74-82 [2010-06-01; online 2010-02-04]

Lars Behrendt SciLifeLab Fellow

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Local release of highly loaded antibodies from functionalized nanoporous support for cancer immunotherapy.

Lei C, Liu P, Chen B, ..., Liu J, Hellstrom KE

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Parasit Vectors 3 (-) 47 [2010-05-26; online 2010-05-26]

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Git A, Dvinge H, Salmon-Divon M, ..., Bertone P, Caldas C

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Alexandra Teleki SciLifeLab Fellow

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Current Opinion in Genetics & Development 20 (2) 110-117 [2010-04-00; online 2010-04-00]

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Eriksson O, Jahan M, Johnström P, ..., Halldin C, Johansson L

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Olof Eriksson SciLifeLab Fellow

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Pelechano V, Pérez-Ortín JE

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Chao LH, Pellicena P, Deindl S, ..., Schulman H, Kuriyan J

Nat Struct Mol Biol 17 (3) 264-272 [2010-03-00; online 2010-02-07]

SciLifeLab Fellow Sebastian Deindl

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Goldberg AD, Banaszynski LA, Noh KM, ..., Zheng D, Allis CD

Cell 140 (5) 678-691 [2010-03-00; online 2010-03-00]

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Molecular Cell 37 (3) 408-417 [2010-02-00; online 2010-02-00]

Magda Bienko SciLifeLab Fellow

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Comasco E, Nordquist N, Göktürk C, ..., Oreland L, Nilsson KW

Ups. J. Med. Sci. 115 (1) 41-48 [2010-02-00; online 2010-03-02]

Erika Comasco SciLifeLab Fellow

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Bienko M, Green CM, Sabbioneda S, ..., Lehmann AR, Dikic I

Molecular Cell 37 (3) 396-407 [2010-02-00; online 2010-02-00]

Magda Bienko SciLifeLab Fellow

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Jonas K, Edwards AN, Ahmad I, ..., Römling U, Melefors O

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Kristina Jonas SciLifeLab Fellow

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Amunts A, Toporik H, Borovikova A, Nelson N

J. Biol. Chem. 285 (5) 3478-3486 [2010-01-29; online 2009-11-18]

Alexey Amunts SciLifeLab Fellow

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Rudner J, Elsaesser SJ, Müller AC, Belka C, Jendrossek V

Biochemical Pharmacology 79 (1) 10-20 [2010-01-00; online 2010-01-00]

SciLifeLab Fellow Simon Elsässer

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Burki F, Kudryavtsev A, Matz MV, ..., Keeling PJ, Pawlowski J

BMC Evol Biol BMC Evolutionary Biology 10 (1) 377 [2010-00-00; online 2010-00-00]

Fabien Burki SciLifeLab Fellow

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Sharbati S, Friedlander MR, Sharbati J, ..., Rajewsky N, Einspanier R

BMC Genomics 11 (1) 275 [2010-00-00; online 2010-00-00]

Marc Friedländer SciLifeLab Fellow

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Nordquist N, Göktürk C, Comasco E, ..., Oreland L, Hallman J

Brain Res 1305 Suppl (-) S20-S26 [2009-12-11; online 2009-09-22]

Erika Comasco SciLifeLab Fellow

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Deindl S, Kadlecek TA, Cao X, Kuriyan J, Weiss A

Proc. Natl. Acad. Sci. U.S.A. 106 (49) 20699-20704 [2009-12-08; online 2009-11-17]

SciLifeLab Fellow Sebastian Deindl

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Eriksson O, Eich T, Sundin A, ..., Korsgren O, Lundgren T

American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons 9 (12) 2816-2824 [2009-12-00; online 2009-10-21]

Olof Eriksson SciLifeLab Fellow

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Nanotechnology 20 (47) 475101 [2009-11-25; online 2009-10-29]

Alexandra Teleki SciLifeLab Fellow

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Jönsson ME, Franks DG, Woodin BR, ..., Hahn ME, Stegeman JJ

Chem. Biol. Interact. 181 (3) 447-454 [2009-10-30; online 2009-07-15]

Lars Behrendt SciLifeLab Fellow

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Kumar S, Skjaeveland A, Orr RJ, ..., Botnen A, Shalchian-Tabrizi K

BMC Bioinformatics 10 (-) 357 [2009-10-28; online 2009-10-28]

Fabien Burki SciLifeLab Fellow

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Holmfeldt P, Sellin ME, Gullberg M

Cell. Mol. Life Sci. 66 (20) 3263-3276 [2009-10-00; online 2009-07-08]

Mikael Sellin SciLifeLab Fellow

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Stoeckius M, Maaskola J, Colombo T, ..., Piano F, Rajewsky N

Nat. Methods 6 (10) 745-751 [2009-10-00; online 2009-09-06]

Marc Friedländer SciLifeLab Fellow

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Brückl T, Globisch D, Wagner M, Müller M, Carell T

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Daniel Globisch SciLifeLab Fellow

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Nordquist N, Göktürk C, Comasco E, ..., Oreland L, Harro J

Obesity (Silver Spring) 17 (9) 1762-1767 [2009-09-00; online 2009-03-26]

Erika Comasco SciLifeLab Fellow

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Slotte T, Huang HR, Holm K, ..., Lagercrantz U, Lascoux M

Genetics 183 (1) 337-345 [2009-09-00; online 2009-07-06]

SciLifeLab Fellow Tanja Slotte

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Aslund C, Leppert J, Comasco E, ..., Oreland L, Nilsson KW

Behav. Genet. 39 (5) 524-531 [2009-09-00; online 2009-07-07]

Erika Comasco SciLifeLab Fellow

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J Stud Alcohol Drugs 70 (5) 797-804 [2009-09-00; online 2009-09-10]

Erika Comasco SciLifeLab Fellow

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Jonas K, Melefors O

FEMS Microbiol. Lett. 297 (1) 80-86 [2009-08-00; online 2009-05-21]

Kristina Jonas SciLifeLab Fellow

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Pelechano V, Jimeno-González S, Rodríguez-Gil A, ..., Pérez-Ortín JE, Chávez S

PLoS Genet 5 (8) e1000614 [2009-08-00; online 2009-08-21]

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Carlsson J, Aqvist J

J. Phys. Chem. B 113 (30) 10255-10260 [2009-07-30; online 2009-07-08]

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Burki F, Inagaki Y, Bråte J, ..., Pawlowski J, Shalchian-Tabrizi K

Genome Biol Evol 1 (-) 231-238 [2009-07-27; online 2009-07-27]

Fabien Burki SciLifeLab Fellow

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Friedländer MR, Adamidi C, Han T, ..., Kim JK, Rajewsky N

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Marc Friedländer SciLifeLab Fellow

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Karataş OF, Sezgin E, Aydin O, Culha M

Colloids Surf B Biointerfaces 71 (2) 315-318 [2009-07-01; online 2009-03-06]

Erdinc Sezgin SciLifeLab Fellow

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Jura N, Endres NF, Engel K, ..., Zhang X, Kuriyan J

Cell 137 (7) 1293-1307 [2009-06-26; online 2009-07-01]

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Chem Mater 21 (10) 2094-2100 [2009-05-26; online 2009-05-26]

Alexandra Teleki SciLifeLab Fellow

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Teleki A, Pratsinis SE

Phys Chem Chem Phys 11 (19) 3742-3747 [2009-05-21; online 2009-03-02]

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Amunts A, Nelson N

Structure 17 (5) 637-650 [2009-05-13; online 2009-05-19]

Alexey Amunts SciLifeLab Fellow

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Petersson J, Carlström M, Schreiber O, ..., Lundberg JO, Holm L

Free Radic. Biol. Med. 46 (8) 1068-1075 [2009-04-15; online 2009-01-21]

Gustaf Christoffersson SciLifeLab Fellow

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Pawlowski J, Burki F

J. Eukaryot. Microbiol. 56 (1) 16-25 [2009-04-02; online 2009-04-02]

Fabien Burki SciLifeLab Fellow

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Active-site motions and polarity enhance catalytic turnover of hydrated subtilisin dissolved in organic solvents.

Hudson EP, Eppler RK, Beaudoin JM, ..., Reimer JA, Clark DS

Journal of the American Chemical Society 131 (12) 4294-4300 [2009-04-01; online 2009-03-26]

Paul Hudson SciLifeLab Fellow

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Regulation of c-di-GMP metabolism in biofilms.

Jonas K, Melefors O, Römling U

Future Microbiol 4 (3) 341-358 [2009-04-00; online 2009-03-31]

Kristina Jonas SciLifeLab Fellow

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Harro J, Merenäkk L, Nordquist N, ..., Comasco E, Oreland L

Biol Psychol 81 (1) 9-13 [2009-04-00; online 2009-05-14]

Erika Comasco SciLifeLab Fellow

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Recent speciation of Capsella rubella from Capsella grandiflora, associated with loss of self-incompatibility and an extreme bottleneck.

Guo YL, Bechsgaard JS, Slotte T, ..., Weigel D, Schierup MH

Proc. Natl. Acad. Sci. U.S.A. 106 (13) 5246-5251 [2009-03-31; online 2009-03-23]

SciLifeLab Fellow Tanja Slotte

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Recent speciation associated with the evolution of selfing in Capsella.

Foxe JP, Slotte T, Stahl EA, ..., Hurka H, Wright SI

Proc. Natl. Acad. Sci. U.S.A. 106 (13) 5241-5245 [2009-03-31; online 2009-02-19]

SciLifeLab Fellow Tanja Slotte

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J. Heterocyclic Chem. 45 (-) 1161-1166 [2009-03-13; online 2009-03-13]

Daniel Globisch SciLifeLab Fellow

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The structure, regulation, and function of ZAP-70.

Au-Yeung BB, Deindl S, Hsu LY, ..., Kuriyan J, Weiss A

Immunol. Rev. 228 (1) 41-57 [2009-03-00; online 2009-03-18]

SciLifeLab Fellow Sebastian Deindl

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Brännström K, Sellin ME, Holmfeldt P, Brattsand M, Gullberg M

Infect. Immun. 77 (3) 1144-1154 [2009-03-00; online 2009-01-05]

Mikael Sellin SciLifeLab Fellow

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Ubiquitin-binding motif of human DNA polymerase eta is required for correct localization.

Sabbioneda S, Green CM, Bienko M, ..., Dikic I, Lehmann AR

Proc. Natl. Acad. Sci. U.S.A. 106 (8) E20; author reply E21 [2009-02-24; online 2009-02-26]

Magda Bienko SciLifeLab Fellow

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Minge MA, Silberman JD, Orr RJ, ..., Skjaeveland A, Jakobsen KS

Proceedings of the Royal Society B: Biological Sciences 276 (1657) 597-604 [2009-02-22; online 2008-11-14]

Fabien Burki SciLifeLab Fellow

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Wallin G, Nervall M, Carlsson J, Åqvist J

J. Chem. Theory Comput. 5 (2) 380-395 [2009-02-10; online 2009-02-10]

Jens Carlsson SciLifeLab Fellow

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Cytochrome P450 1D1: a novel CYP1A-related gene that is not transcriptionally activated by PCB126 or TCDD.

Goldstone JV, Jönsson ME, Behrendt L, ..., Nelson DR, Stegeman JJ

Arch. Biochem. Biophys. 482 (1-2) 7-16 [2009-02-00; online 2008-12-10]

Lars Behrendt SciLifeLab Fellow

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Role of Gas−Aerosol Mixing during in Situ Coating of Flame-Made Titania Particles

Teleki A, Buesser B, Heine MC, ..., Akhtar MK, Pratsinis SE

Ind. Eng. Chem. Res. 48 (1) 85-92 [2009-01-07; online 2009-01-07]

Alexandra Teleki SciLifeLab Fellow

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Picosecond fluorescence of intact and dissolved PSI-LHCI crystals.

van Oort B, Amunts A, Borst JW, ..., van Amerongen H, Croce R

Biophys. J. 95 (12) 5851-5861 [2008-12-15; online 2008-10-17]

Alexey Amunts SciLifeLab Fellow

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Human Wrnip1 is localized in replication factories in a ubiquitin-binding zinc finger-dependent manner.

Crosetto N, Bienko M, Hibbert RG, ..., Sixma TK, Dikic I

J. Biol. Chem. 283 (50) 35173-35185 [2008-12-12; online 2008-10-07]

Magda Bienko SciLifeLab Fellow

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Nanoscale separation of molecular species based on their rotational mobility.

Testa I, Schönle A, von Middendorff C, ..., Hell SW, Egner A

Opt Express 16 (25) 21093-21104 [2008-12-08; online 2008-12-10]

Ilaria Testa SciLifeLab Fellow

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Calculation of nanoparticle capture efficiency in magnetic drug targeting

Cregg PJ, Murphy K, Mardinoglu A

Journal of Magnetism and Magnetic Materials 320 (23) 3272-3275 [2008-12-00; online 2008-12-00]

Adil Mardinoglu SciLifeLab Fellow

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A human snoRNA with microRNA-like functions.

Ender C, Krek A, Friedländer MR, ..., Rajewsky N, Meister G

Mol. Cell 32 (4) 519-528 [2008-11-21; online 2008-11-26]

Marc Friedländer SciLifeLab Fellow

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In situ coating of flame-made TiO2 particles with nanothin SiO2 films.

Teleki A, Heine MC, Krumeich F, Akhtar MK, Pratsinis SE

Langmuir 24 (21) 12553-12558 [2008-11-04; online 2008-10-11]

Alexandra Teleki SciLifeLab Fellow

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Sortase-mediated assembly and surface topology of adhesive pneumococcal pili.

Fälker S, Nelson AL, Morfeldt E, ..., Normark S, Henriques-Normark B

Mol. Microbiol. 70 (3) 595-607 [2008-11-00; online 2008-09-17]

Kristina Jonas SciLifeLab Fellow

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Importance of Bak for celecoxib-induced apoptosis.

Müller AC, Handrick R, Elsaesser SJ, ..., Belka C, Jendrossek V

Biochem. Pharmacol. 76 (9) 1082-1096 [2008-10-30; online 2008-08-19]

SciLifeLab Fellow Simon Elsässer

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miRNA, siRNA, piRNA: Knowns of the unknown.

Kutter C, Svoboda P

RNA Biol 5 (4) 181-188 [2008-10-16; online 2008-10-16]

Claudia Kutter SciLifeLab Fellow

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Biocatalyst activity in nonaqueous environments correlates with centisecond-range protein motions.

Eppler RK, Hudson EP, Chase SD, ..., Reimer JA, Clark DS

Proc. Natl. Acad. Sci. U.S.A. 105 (41) 15672-15677 [2008-10-14; online 2008-10-07]

Paul Hudson SciLifeLab Fellow

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The RNA binding protein CsrA controls cyclic di-GMP metabolism by directly regulating the expression of GGDEF proteins.

Jonas K, Edwards AN, Simm R, ..., Römling U, Melefors O

Mol. Microbiol. 70 (1) 236-257 [2008-10-00; online 2008-08-18]

Kristina Jonas SciLifeLab Fellow

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A new FRAP/FRAPa method for three-dimensional diffusion measurements based on multiphoton excitation microscopy.

Mazza D, Braeckmans K, Cella F, ..., De Smedt SS, Diaspro A

Biophys. J. 95 (7) 3457-3469 [2008-10-00; online 2008-07-11]

Ilaria Testa SciLifeLab Fellow

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Photoactivation of pa-GFP in 3D: optical tools for spatial confinement.

Testa I, Garrè M, Parazzoli D, ..., Faretta M, Diaspro A

Eur Biophys J 37 (7) 1219-1227 [2008-09-00; online 2008-04-01]

Ilaria Testa SciLifeLab Fellow

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Phylogenomics reveals a new 'megagroup' including most photosynthetic eukaryotes.

Burki F, Shalchian-Tabrizi K, Pawlowski J

Biol. Lett. 4 (4) 366-369 [2008-08-23; online 2008-06-05]

Fabien Burki SciLifeLab Fellow

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Non-Linear Microscopy

Mazza D, Bianchini P, Caorsi V, ..., Vicidomini G, Diaspro A

Springer [book chapter] (-) 47-69 [2008-08-13]

Ilaria Testa SciLifeLab Fellow

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Promoter ChIP-chip analysis in mouse testis reveals Y chromosome occupancy by HSF2.

Akerfelt M, Henriksson E, Laiho A, ..., Kotaja N, Sistonen L

Proc. Natl. Acad. Sci. U.S.A. 105 (32) 11224-11229 [2008-08-12; online 2008-08-05]

Anniina Vihervaara SciLifeLab Fellow

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Ferroelectric WO3Nanoparticles for Acetone Selective Detection

Wang L, Teleki A, Pratsinis SE, Gouma PI

Chem Mater 20 (15) 4794-4796 [2008-08-00; online 2008-08-00]

Alexandra Teleki SciLifeLab Fellow

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Endocytic trafficking of Rac is required for the spatial restriction of signaling in cell migration.

Palamidessi A, Frittoli E, Garré M, ..., Scita G, Di Fiore PP

Cell 134 (1) 135-147 [2008-07-11; online 2008-07-11]

Ilaria Testa SciLifeLab Fellow

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Polyploid speciation did not confer instant reproductive isolation in Capsella (Brassicaceae).

Slotte T, Huang H, Lascoux M, Ceplitis A

Mol. Biol. Evol. 25 (7) 1472-1481 [2008-07-00; online 2008-04-15]

SciLifeLab Fellow Tanja Slotte

PubMed DOI Crossref

Global regulation of the interphase microtubule system by abundantly expressed Op18/stathmin.

Sellin ME, Holmfeldt P, Stenmark S, Gullberg M

Mol. Biol. Cell 19 (7) 2897-2906 [2008-07-00; online 2008-04-23]

Mikael Sellin SciLifeLab Fellow

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A computerized infusion pump for control of tissue tracer concentration during positron emission tomography in vivo pharmacokinetic/pharmacodynamic measurements.

Eriksson O, Wallberg A, Syvänen S, ..., Långström B, Bergström M

BMC medical physics 8 (-) 2 [2008-05-30; online 2008-05-30]

Olof Eriksson SciLifeLab Fellow

PubMed DOI Crossref

Predicting binding modes from free energy calculations.

Nervall M, Hanspers P, Carlsson J, Boukharta L, Aqvist J

J. Med. Chem. 51 (9) 2657-2667 [2008-05-08; online 2008-04-12]

Jens Carlsson SciLifeLab Fellow

PubMed DOI Crossref

Modeling membranes under a transmembrane potential.

Delemotte L, Dehez F, Treptow W, Tarek M

J. Phys. Chem. B 112 (18) 5547-5550 [2008-05-08; online 2008-04-16]

Lucie Delemotte SciLifeLab Fellow

PubMed DOI Crossref

Combining docking, molecular dynamics and the linear interaction energy method to predict binding modes and affinities for non-nucleoside inhibitors to HIV-1 reverse transcriptase.

Carlsson J, Boukharta L, Aqvist J

J. Med. Chem. 51 (9) 2648-2656 [2008-05-08; online 2008-04-12]

Jens Carlsson SciLifeLab Fellow

DOI Crossref

Synthesis andin vitro evaluation of18F-β-carboline alkaloids as PET ligands

Blom E, Karimi F, Eriksson O, Hall H, Långström B

J Label Compd Radiopharm 51 (6) 277-282 [2008-05-00; online 2008-00-00]

Olof Eriksson SciLifeLab Fellow

DOI Crossref

Stability ofHoogsteen-Type Triplexes – Electrostatic Attraction between Duplex Backbone and Triplex-Forming Oligonucleotide (TFO) Using an Intercalating Conjugate

Globisch D, Bomholt N, Filichev VV, Pedersen EB

HCA 91 (5) 805-818 [2008-05-00; online 2008-05-00]

Daniel Globisch SciLifeLab Fellow

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Op18/Stathmin counteracts the activity of overexpressed tubulin-disrupting proteins in a human leukemia cell line.

Sellin ME, Holmfeldt P, Stenmark S, Gullberg M

Experimental Cell Research 314 (6) 1367-1377 [2008-04-01; online 2008-01-05]

Mikael Sellin SciLifeLab Fellow

PubMed DOI Crossref

Spatial control of pa-GFP photoactivation in living cells.

Testa I, Parazzoli D, Barozzi S, ..., Faretta M, Diaspro A

J Microsc 230 (Pt 1) 48-60 [2008-04-00; online 2008-04-05]

Ilaria Testa SciLifeLab Fellow

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Positron emission tomography and target-controlled infusion for precise modulation of brain drug concentration.

Eriksson O, Josephsson R, Långstrom B, Bergström M

Nuclear medicine and biology 35 (3) 299-303 [2008-04-00; online 2008-03-22]

Olof Eriksson SciLifeLab Fellow

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Discovering microRNAs from deep sequencing data using miRDeep.

Friedländer MR, Chen W, Adamidi C, ..., Knespel S, Rajewsky N

Nat. Biotechnol. 26 (4) 407-415 [2008-04-00; online 2008-04-09]

Marc Friedländer SciLifeLab Fellow

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Flame-made Nb- and Cu-doped TiO2 sensors for CO and ethanol

TELEKI A, BJELOBRK N, PRATSINIS S

Sensors and Actuators B: Chemical 130 (1) 449-457 [2008-03-14; online 2008-03-14]

Alexandra Teleki SciLifeLab Fellow

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In situ observation of protein phosphorylation by high-resolution NMR spectroscopy.

Selenko P, Frueh DP, Elsaesser SJ, ..., Gygi SP, Wagner G

Nat. Struct. Mol. Biol. 15 (3) 321-329 [2008-03-00; online 2008-02-24]

SciLifeLab Fellow Simon Elsässer

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Functional organization of a plant Photosystem I: evolution of a highly efficient photochemical machine.

Amunts A, Nelson N

Plant Physiol. Biochem. 46 (3) 228-237 [2008-03-00; online 2008-01-03]

Alexey Amunts SciLifeLab Fellow

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Requirements for the interaction of mouse Polkappa with ubiquitin and its biological significance.

Guo C, Tang TS, Bienko M, Dikic I, Friedberg EC

J. Biol. Chem. 283 (8) 4658-4664 [2008-02-22; online 2007-12-26]

Magda Bienko SciLifeLab Fellow

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The transcriptional inhibitor thiolutin blocks mRNA degradation in yeast.

Pelechano V, Pérez-Ortín JE

Yeast 25 (2) 85-92 [2008-02-00; online 2007-10-05]

SciLifeLab Fellow Vicent Pelechano

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Nanostructure Evolution: From Aggregated to Spherical SiO2 Particles Made in Diffusion Flames

Camenzind A, Schulz H, Teleki A, ..., Narayanan T, Pratsinis SE

Eur. J. Inorg. Chem. 2008 (6) 911-918 [2008-02-00; online 2008-02-00]

Alexandra Teleki SciLifeLab Fellow

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Distinguishing between aggregates and agglomerates of flame-made TiO2 by high-pressure dispersion

Teleki A, Wengeler R, Wengeler L, Nirschl H, Pratsinis SE

Powder Technology 181 (3) 292-300 [2008-02-00; online 2008-02-00]

Alexandra Teleki SciLifeLab Fellow

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The quality of SiO2-coatings on flame-made TiO2-based nanoparticles

Teleki A, Akhtar MK, Pratsinis SE

J. Mater. Chem. 18 (30) 3547 [2008-00-00; online 2008-00-00]

Alexandra Teleki SciLifeLab Fellow

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The Schistosoma mansoni protein Sm16/SmSLP/SmSPO-1 is a membrane-binding protein that lacks the proposed microtubule-regulatory activity.

Holmfeldt P, Brännström K, Sellin ME, ..., Carlsson SR, Gullberg M

Molecular and biochemical parasitology 156 (2) 225-234 [2007-12-00; online 2007-08-25]

Mikael Sellin SciLifeLab Fellow

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Improving the Accuracy of the Linear Interaction Energy Method for Solvation Free Energies.

Almlöf M, Carlsson J, Åqvist J

J. Chem. Theory Comput. 3 (6) 2162-2175 [2007-11-00; online 2007-11-01]

Jens Carlsson SciLifeLab Fellow

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Positron emission tomography: a real-time tool to quantify early islet engraftment in a preclinical large animal model.

Eich T, Eriksson O, Sundin A, ..., Korsgren O, Lundgren T

Transplantation 84 (7) 893-898 [2007-10-15; online 2007-11-07]

Olof Eriksson SciLifeLab Fellow

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Blue-light (488nm)-irradiation-induced photoactivation of the photoactivatable green fluorescent protein

Testa I, Mazza D, Barozzi S, Faretta M, Diaspro A

Appl. Phys. Lett. 91 (13) 133902 [2007-09-24; online 2007-09-24]

Ilaria Testa SciLifeLab Fellow

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Differential expression of genes important for adaptation in Capsella bursa-pastoris (Brassicaceae).

Slotte T, Holm K, McIntyre LM, Lagercrantz U, Lascoux M

PLANT PHYSIOLOGY 145 (1) 160-173 [2007-09-00; online 2007-07-13]

SciLifeLab Fellow Tanja Slotte

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Phylogenomics reshuffles the eukaryotic supergroups.

Burki F, Shalchian-Tabrizi K, Minge M, ..., Jakobsen KS, Pawlowski J

PLoS ONE 2 (8) e790 [2007-08-29; online 2007-08-29]

Fabien Burki SciLifeLab Fellow

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MicroRNA-mediated regulation of stomatal development in Arabidopsis.

Kutter C, Schöb H, Stadler M, Meins F, Si-Ammour A

Plant Cell 19 (8) 2417-2429 [2007-08-00; online 2007-08-17]

Claudia Kutter SciLifeLab Fellow

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Roles of curli, cellulose and BapA in Salmonella biofilm morphology studied by atomic force microscopy.

Jonas K, Tomenius H, Kader A, ..., Belova LM, Melefors O

BMC Microbiol. 7 (-) 70 [2007-07-24; online 2007-07-24]

Kristina Jonas SciLifeLab Fellow

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Structures of Mycobacterium tuberculosis 1-deoxy-D-xylulose-5-phosphate reductoisomerase provide new insights into catalysis.

Henriksson LM, Unge T, Carlsson J, ..., Mowbray SL, Jones TA

J. Biol. Chem. 282 (27) 19905-19916 [2007-07-06; online 2007-05-09]

Jens Carlsson SciLifeLab Fellow

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Visualization of early engraftment in clinical islet transplantation by positron-emission tomography.

Eich T, Eriksson O, Lundgren T, Nordic Network for Clinical Islet Transplantation

N. Engl. J. Med. 356 (26) 2754-2755 [2007-06-28; online 2007-06-29]

Olof Eriksson SciLifeLab Fellow

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Structural basis for the inhibition of tyrosine kinase activity of ZAP-70.

Deindl S, Kadlecek TA, Brdicka T, ..., Weiss A, Kuriyan J

Cell 129 (4) 735-746 [2007-05-18; online 2007-05-22]

SciLifeLab Fellow Sebastian Deindl

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The structure of a plant photosystem I supercomplex at 3.4 A resolution.

Amunts A, Drory O, Nelson N

Nature 447 (7140) 58-63 [2007-05-03; online 2007-05-04]

Alexey Amunts SciLifeLab Fellow

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Active site of epoxide hydrolases revisited: a noncanonical residue in potato StEH1 promotes both formation and breakdown of the alkylenzyme intermediate.

Thomaeus A, Carlsson J, Aqvist J, Widersten M

Biochemistry 46 (9) 2466-2479 [2007-03-06; online 2007-02-07]

Jens Carlsson SciLifeLab Fellow

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Calculations of solute and solvent entropies from molecular dynamics simulations.

Carlsson J, Aqvist J

Phys Chem Chem Phys 8 (46) 5385-5395 [2006-12-14; online 2006-09-08]

Jens Carlsson SciLifeLab Fellow

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pH-dependent activation of the BarA-UvrY two-component system in Escherichia coli.

Mondragón V, Franco B, Jonas K, ..., Melefors O, Georgellis D

J. Bacteriol. 188 (23) 8303-8306 [2006-12-00; online 2006-09-15]

Kristina Jonas SciLifeLab Fellow

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Ubiquitin-binding motifs in REV1 protein are required for its role in the tolerance of DNA damage.

Guo C, Tang TS, Bienko M, ..., Dikic I, Friedberg EC

Molecular and Cellular Biology 26 (23) 8892-8900 [2006-12-00; online 2006-09-18]

Magda Bienko SciLifeLab Fellow

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Ubiquitin hubs in oncogenic networks.

Crosetto N, Bienko M, Dikic I

Molecular cancer research : MCR 4 (12) 899-904 [2006-12-00; online 2006-12-26]

Magda Bienko SciLifeLab Fellow

DOI Crossref

Sensing of organic vapors by flame-made TiO2 nanoparticles

Teleki A, Pratsinis SE, Kalyanasundaram K, Gouma PI

Sensors and Actuators B: Chemical 119 (2) 683-690 [2006-12-00; online 2006-12-00]

Alexandra Teleki SciLifeLab Fellow

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Intrageneric phylogeny of Capsella (Brassicaceae) and the origin of the tetraploid C. bursa-pastoris based on chloroplast and nuclear DNA sequences.

Slotte T, Ceplitis A, Neuffer B, Hurka H, Lascoux M

American journal of botany 93 (11) 1714-1724 [2006-11-00; online 2006-11-01]

SciLifeLab Fellow Tanja Slotte

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Identification of YhdA as a regulator of the Escherichia coli carbon storage regulation system.

Jonas K, Tomenius H, Römling U, Georgellis D, Melefors O

FEMS Microbiol. Lett. 264 (2) 232-237 [2006-11-00; online 2006-10-27]

Kristina Jonas SciLifeLab Fellow

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Monophyly of Rhizaria and multigene phylogeny of unicellular bikonts.

Burki F, Pawlowski J

Molecular Biology and Evolution 23 (10) 1922-1930 [2006-10-00; online 2006-07-07]

Fabien Burki SciLifeLab Fellow

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Duration and degree of cyclosporin induced P-glycoprotein inhibition in the rat blood-brain barrier can be studied with PET.

Syvänen S, Blomquist G, Sprycha M, ..., Långström B, Bergström M

NeuroImage 32 (3) 1134-1141 [2006-09-00; online 2006-07-20]

Olof Eriksson SciLifeLab Fellow

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Analysis of expressed sequence tags from a naked foraminiferan Reticulomyxa filosa.

Burki F, Nikolaev SI, Bolivar I, Guiard J, Pawlowski J

Genome 49 (8) 882-887 [2006-08-00; online 2006-10-13]

Fabien Burki SciLifeLab Fellow

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A genomic study of the inter-ORF distances in Saccharomyces cerevisiae.

Pelechano V, García-Martínez J, Pérez-Ortín JE

Yeast 23 (9) 689-699 [2006-07-15; online 2006-07-18]

SciLifeLab Fellow Vicent Pelechano

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Continuum solvation models in the linear interaction energy method.

Carlsson J, Andér M, Nervall M, Aqvist J

J. Phys. Chem. B 110 (24) 12034-12041 [2006-06-22; online 2006-06-28]

Jens Carlsson SciLifeLab Fellow

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High-pressure liquid dispersion and fragmentation of flame-made silica agglomerates.

Wengeler R, Teleki A, Vetter M, Pratsinis SE, Nirschl H

Langmuir 22 (11) 4928-4935 [2006-05-23; online 2006-05-17]

Alexandra Teleki SciLifeLab Fellow

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The Escherichia coli BarA-UvrY two-component system is a virulence determinant in the urinary tract.

Tomenius H, Pernestig AK, Jonas K, ..., Normark S, Melefors O

BMC Microbiol. 6 (-) 27 [2006-03-10; online 2006-03-10]

Kristina Jonas SciLifeLab Fellow

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T2P-GFP: two-photon photoactivation of PA-GFP in the 720-840 nm spectral region.

Testa I, Schneider M, Barozzi S, ..., Faretta M, Diaspro A

- - (-) - [2006-02-09; online 2006-02-09]

Ilaria Testa SciLifeLab Fellow

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The wound response in tomato--role of jasmonic acid.

Wasternack C, Stenzel I, Hause B, ..., Feussner I, Miersch O

J. Plant Physiol. 163 (3) 297-306 [2006-02-00; online 2005-12-20]

Claudia Kutter SciLifeLab Fellow

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Oligomerization states of the association domain and the holoenyzme of Ca2+/CaM kinase II.

Rosenberg OS, Deindl S, Comolli LR, ..., Nairn AC, Kuriyan J

The FEBS journal 273 (4) 682-694 [2006-02-00; online 2006-01-31]

SciLifeLab Fellow Sebastian Deindl

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Molecular characterization of geminivirus-derived small RNAs in different plant species.

Akbergenov R, Si-Ammour A, Blevins T, ..., Hohn T, Pooggin MM

Nucleic Acids Res. 34 (2) 462-471 [2006-01-18; online 2006-01-18]

Claudia Kutter SciLifeLab Fellow

DOI Crossref

From Microscopy to Nanoscopy: How to Get and Read Optical Data at Single Molecule Level Using Confocal and Two-Photon Excitation Microscopy

Diaspro A, Bianchini P, Caorsi V, ..., Cannone F, Usai C

Springer [book chapter] (-) 187-207 [2006-01-14]

Ilaria Testa SciLifeLab Fellow

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Ubiquitin-binding domains in Y-family polymerases regulate translesion synthesis.

Bienko M, Green CM, Crosetto N, ..., Hofmann K, Dikic I

Science (New York, N.Y.) 310 (5755) 1821-1824 [2005-12-16; online 2005-12-17]

Magda Bienko SciLifeLab Fellow

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Structure of the autoinhibited kinase domain of CaMKII and SAXS analysis of the holoenzyme.

Rosenberg OS, Deindl S, Sung RJ, Nairn AC, Kuriyan J

Cell 123 (5) 849-860 [2005-12-02; online 2005-12-06]

SciLifeLab Fellow Sebastian Deindl

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Solving the structure of plant photosystem I--biochemistry is vital.

Amunts A, Ben-Shem A, Nelson N

Photochem. Photobiol. Sci. 4 (12) 1011-1015 [2005-12-00; online 2005-09-19]

Alexey Amunts SciLifeLab Fellow

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Biocatalysis in semi-aqueous and nearly anhydrous conditions.

Hudson EP, Eppler RK, Clark DS

Current Opinion in Biotechnology 16 (6) 637-643 [2005-12-00; online 2005-10-26]

Paul Hudson SciLifeLab Fellow

PubMed

Preparation and evaluation of (68)Ga-DOTA-hEGF for visualization of EGFR expression in malignant tumors.

Velikyan I, Sundberg AL, Lindhe O, ..., Långström B, Tolmachev V

Journal of nuclear medicine : official publication, Society of Nuclear Medicine 46 (11) 1881-1888 [2005-11-00; online 2005-11-05]

Olof Eriksson SciLifeLab Fellow

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Isolation of novel single-chain Cro proteins targeted for binding to the bcl-2 transcription initiation site by repertoire selection and subunit combinatorics.

Jonas K, Van Der Vries E, Nilsson MT, Widersten M

Protein Eng. Des. Sel. 18 (11) 537-546 [2005-11-00; online 2005-09-26]

Kristina Jonas SciLifeLab Fellow

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Two-photon activation and excitation properties of PA-GFP in the 720-920-nm region.

Schneider M, Barozzi S, Testa I, Faretta M, Diaspro A

Biophysical Journal 89 (2) 1346-1352 [2005-08-00; online 2005-05-20]

Ilaria Testa SciLifeLab Fellow

DOI Crossref

Flame-coating of titania particles with silica

Teleki A, Pratsinis SE, Wegner K, Jossen R, Krumeich F

J. Mater. Res. 20 (5) 1336-1347 [2005-05-00; online 2011-03-03]

Alexandra Teleki SciLifeLab Fellow

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Absolute and relative entropies from computer simulation with applications to ligand binding.

Carlsson J, Aqvist J

J. Phys. Chem. B 109 (13) 6448-6456 [2005-04-07; online 2006-07-21]

Jens Carlsson SciLifeLab Fellow

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Birth and adaptive evolution of a hominoid gene that supports high neurotransmitter flux.

Burki F, Kaessmann H

Nat Genet 36 (10) 1061-1063 [2004-10-00; online 2004-09-19]

Fabien Burki SciLifeLab Fellow

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Proton binding to proteins: pK(a) calculations with explicit and implicit solvent models.

Simonson T, Carlsson J, Case DA

J. Am. Chem. Soc. 126 (13) 4167-4180 [2004-04-07; online 2004-04-01]

Jens Carlsson SciLifeLab Fellow

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Capacity ofSalvinia minima Baker to Tolerate and Accumulate As and Pb

Hoffmann T, Kutter C, Santamaría J

Eng. Life Sci. 4 (1) 61-65 [2004-02-05; online 2004-02-05]

Claudia Kutter SciLifeLab Fellow

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Photocontrol of cell adhesion processes: model studies with cyclic azobenzene-RGD peptides.

Schütt M, Krupka SS, Milbradt AG, ..., Renner C, Moroder L

Chemistry & biology 10 (6) 487-490 [2003-06-00; online 2003-07-03]

SciLifeLab Fellow Sebastian Deindl

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Enzymes of jasmonate biosynthesis occur in tomato sieve elements.

Hause B, Hause G, Kutter C, Miersch O, Wasternack C

Plant Cell Physiol. 44 (6) 643-648 [2003-06-00; online 2003-06-27]

Claudia Kutter SciLifeLab Fellow

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Phylogenetic position of Gromia oviformis Dujardin inferred from nuclear-encoded small subunit ribosomal DNA.

Burki F, Berney C, Pawlowski J

Protist 153 (3) 251-260 [2002-09-00; online 2002-10-23]

Fabien Burki SciLifeLab Fellow

Publications

5741 publications