Publications 2016

950 publications

TGF-β Affects the Differentiation of Human GM-CSF+ CD4+ T Cells in an Activation- and Sodium-Dependent Manner.
Éliás S, Schmidt A, Kannan V, Andersson J, Tegnér J
Front Immunol 7 (-) 603 [2016-12-23; online 2016-12-23]
Whole genome resequencing of a laboratory-adapted Drosophila melanogaster
Gilks WP, Pennell TM, Flis I, Webster MT, Morrow EH
F1000Res 5 (-) 2644 [2016-12-20; online 2016-12-20]
Spontaneous Vesiculation and pH-Induced Disassembly of a Lysosomotropic Detergent: Impacts on Lysosomotropism and Lysosomal Delivery.
Villamil Giraldo AM, Fyrner T, Wennmalm S, ..., Öllinger K, Ederth T
Langmuir 32 (50) 13566-13575 [2016-12-20; online 2016-12-12]
Production of individualized V gene databases reveals high levels of immunoglobulin genetic diversity.
Corcoran MM, Phad GE, Vázquez Bernat N, ..., Martin M, Karlsson Hedestam GB
Nat Commun 7 (-) 13642 [2016-12-20; online 2016-12-20]
New version of the EELS database: eelsdb.eu
Ewels P, Sikora T, Serin V, Ewels CP, Lajaunie L
- - (-) 919-920 [2016-12-20; online 2016-12-20]
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]
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]
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]
A computational method for detection of structural variants using Deviant Reads and read pair Orientation: DevRO
Sayyab S, Rafati N, Carneiro M, ..., Andersson L, Johan Rubin C
- - (-) - [2016-12-15; online 2016-12-15]
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]
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]
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]
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]
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]
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]
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]
Cluster Flow: A user-friendly bioinformatics workflow tool.
Ewels P, Krueger F, Käller M, Andrews S
F1000Res 5 (-) 2824 [2016-12-06; online 2016-12-06]
Cluster Flow: A user-friendly bioinformatics workflow tool
Ewels P, Krueger F, Käller M, Andrews S
F1000Res 5 (-) 2824 [2016-12-06; online 2016-12-06]
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]
BLISS: quantitative and versatile genome-wide profiling of DNA breaks in situ
Yan WX, Mirzazadeh R, Garnerone S, ..., Bienko M, Crosetto N
- - (-) - [2016-12-04; online 2016-12-04]
Magda Bienko SciLifeLab Fellow
ΝFΚΒΙΕ Deletions: A Novel Marker of Clinical Aggressiveness in Primary Mediastinal B-Cell Lymphoma
Noerenberg* D, Mansouri* L, Young E, ..., Damm** F, Rosenquist** R
Blood 128 (22) 609-609 [2016-12-02; online 2016-12-02]
The Heterogeneous Fusion Gene Landscape in Pediatric Acute Lymphoblastic Leukemia
Marincevic-Zuniga Y, Dahlberg J, Nilsson S, ..., Nordlund J, Syvänen AC
Blood 128 (22) 4081-4081 [2016-12-02; online 2016-12-02]
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]
Tailored Approaches for Refined Prognostication in Chronic Lymphocytic Leukemia Patients with Mutated Versus Unmutated Immunoglobulin Receptors
Baliakas P, Moysiadis T, Hadzidimitriou A, ..., Rosenquist R, Stamatopoulos, on behalf of ERIC K
Blood 128 (22) 3199-3199 [2016-12-02; online 2016-12-02]
Reappraising Immunoglobulin Repertoire Restrictions in Chronic Lymphocytic Leukemia: Focus on Major Stereotyped Subsets and Closely Related Satellites
Agathangelidis A, Hadzidimitriou A, Minga E, ..., Ghia P, Stamatopoulos K
Blood 128 (22) 4376-4376 [2016-12-02; online 2016-12-02]
Profiling the Genomic Landscape at the Early Stages of CLL: Low Genomic Complexity and Paucity of Driver Mutations in MBL and Indolent CLL
Agathangelidis A, Ljungström V, Scarfò L, ..., Rosenquist R, Ghia P
Blood 128 (22) 3214-3214 [2016-12-02; online 2016-12-02]
Overexpression of Ribosomal Proteins Is Associated with Resistance to Immunochemotherapy in Diffuse Large B-Cell Lymphoma Patients
Stenson M, Bram-Ednersson S, Nilsson-Ehle H, ..., Hasselblom S, Andersson PO
Blood 128 (22) 4121-4121 [2016-12-02; online 2016-12-02]
From the Past to the Present: Wolf Phylogeography and Demographic History Based on the Mitochondrial Control Region
Ersmark E, Klütsch CFC, Chan YL, ..., Dalén L, Savolainen P
Front. Ecol. Evol. 4 (-) - [2016-12-02; online 2016-12-02]
DNA Copy Number Gains of TCF4 (E2-2) Are Associated with Poor Outcome in Diffuse Large B-Cell Lymphoma
Hartert K, Tadros S, Bouska A, ..., Alizadeh AA, Green MR
Blood 128 (22) 2686-2686 [2016-12-02; online 2016-12-02]
Automated Clustering Analysis of Immunoglobulin Sequences in Chronic Lymphocytic Leukemia Based on 3D Structural Descriptors
Marcatili P, Mochament K, Agathangelidis A, ..., Hadzidimitriou A, Tzovaras D
Blood 128 (22) 4365-4365 [2016-12-02; online 2016-12-02]
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]
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
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]
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]
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]
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]
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]
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]
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]
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]
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]
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]
Exploiting Bisphosphonate-Bioactive-Glass Interactions for the Development of Self-Healing and Bioactive Composite Hydrogels.
Diba M, An J, Schmidt S, ..., Boccaccini AR, Leeuwenburgh SC
Macromol Rapid Commun 37 (23) 1952-1959 [2016-12-00; online 2016-09-19]
Early Perspective.
Seashore-Ludlow B, Lundbäck T
J Biomol Screen 21 (10) 1019-1033 [2016-12-00; online 2016-07-20]
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]
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]
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]
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]
Consistency in drug response profiling.
Mpindi JP, Yadav B, Östling P, ..., Kallioniemi O, Aittokallio T
Nature 540 (7631) E5-E6 [2016-11-30; online 2016-12-03]
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]
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]
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]
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]
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]
A microarray whole-genome gene expression dataset in a rat model of inflammatory corneal angiogenesis.
Mukwaya A, Lindvall JM, Xeroudaki M, ..., Jensen LD, Lagali N
Sci Data 3 (-) 160103 [2016-11-22; online 2016-11-22]
The geographical distribution of grey wolves (Canis lupus) in China: a systematic review.
Wang L, Ma YP, Zhou QJ, ..., Savolaimen P, Wang GD
Zool Res 37 (6) 315-326 [2016-11-18; online 2017-01-21]
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 2016-11-01]
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]
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]
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]
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]
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]
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]
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]
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]
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]
Whole genome resequencing of a laboratory-adapted Drosophila melanogaster population sample.
Gilks WP, Pennell TM, Flis I, Webster MT, Morrow EH
F1000Res 5 (-) 2644 [2016-11-07; online 2016-11-07]
Whole genome resequencing of a laboratory-adapted Drosophila melanogaster population sample
Gilks WP, Pennell TM, Flis I, Webster MT, Morrow EH
F1000Res 5 (-) 2644 [2016-11-07; online 2016-11-07]
Evolutionary forces affecting synonymous variations in plant genomes
Clément Y, Sarah G, Holtz Y, ..., David J, Glémin S
- - (-) - [2016-11-07; online 2016-11-07]
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]
Affiliated researcher
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]
WhatsHap: fast and accurate read-based phasing
Martin M, Patterson M, Garg S, ..., Schöenhuth A, Marschall T
- - (-) - [2016-11-02; online 2016-11-02]
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]
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]
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]
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]
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]
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
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]
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]
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
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]
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]
Immunity Gone Astray - NETs in Cancer.
Cedervall J, Olsson AK
Trends Cancer 2 (11) 633-634 [2016-11-00; online 2016-11-11]
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]
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]
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]
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]
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]
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]
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]
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]
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]
Evaluation of Biocompatibility and Release of Reactive Oxygen Species of Aluminum Oxide-Coated Materials.
Mestres G, Espanol M, Xia W, Tenje M, Ott M
ACS Omega 1 (4) 706-713 [2016-10-31; online 2016-10-27]
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]
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]
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]
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]
DDLS Fellow Fredrik Edfors
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]
SweGen: A whole-genome map of genetic variability in a cross-section of the Swedish population
Ameur A, Dahlberg J, Olason P, ..., Magnusson P, Gyllensten U
- - (-) - [2016-10-17; online 2016-10-17]
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]
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]
Unmanned aerial vehicles (drones) in out-of-hospital-cardiac-arrest.
Claesson A, Fredman D, Svensson L, ..., Lennartsson J, Ban Y
Scand J Trauma Resusc Emerg Med 24 (1) 124 [2016-10-12; online 2016-10-12]
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]
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
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]
Arming the Neighborhood.
Koskiniemi S, Elf J
Dev. Cell 39 (1) 5-6 [2016-10-10; online 2016-10-12]
The Chd1 chromatin remodeler shifts hexasomes unidirectionally
Levendosky RF, Sabantsev A, Deindl S, Bowman GD
- - (-) - [2016-10-09; online 2016-10-09]
SciLifeLab Fellow Sebastian Deindl
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]
Accurate contact predictions for thousands of protein families using PconsC3
Skwark MJ, Michel M, Menéndez Hurtado D, Ekeberg M, Elofsson A
- - (-) - [2016-10-07; online 2016-10-07]
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Elevated Basal Insulin Secretion in Type 2 Diabetes Caused by Reduced Plasma Membrane Cholesterol.
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DDLS Fellow Tobias Andermann
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Exploration of high-density protein microarrays for antibody validation and autoimmunity profiling.
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XMetDB: an open access database for xenobiotic metabolism.
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NUDT15 Hydrolyzes 6-Thio-DeoxyGTP to Mediate the Anticancer Efficacy of 6-Thioguanine.
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Efficacy of ATR inhibitors as single agents in Ewing sarcoma.
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Efficient Integration of Coupled Electrical-Chemical Systems in Multiscale Neuronal Simulations.
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Proteomics of Cerebrospinal Fluid in Patients with Vestibular Schwannoma
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A distinct mutation pattern at CTCF motifs in cancer
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POLD3 Is Haploinsufficient for DNA Replication in Mice.
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Mol. Cell 63 (5) 877-883 [2016-09-01; online 2016-08-11]
Drug response prediction by inferring pathway-response associations with kernelized Bayesian matrix factorization.
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Bioinformatics 32 (17) i455-i463 [2016-09-01; online 2016-09-03]
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]
Absence of the Autophagy Adaptor SQSTM1/p62 Causes Childhood-Onset Neurodegeneration with Ataxia, Dystonia, and Gaze Palsy.
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A novel variant in MYLK causes thoracic aortic dissections: genotypic and phenotypic description.
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BMC Med. Genet. 17 (1) 61 [2016-09-01; online 2016-09-01]
Tissue microarray profiling in human heart failure.
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The Impact of Endurance Training on Human Skeletal Muscle Memory, Global Isoform Expression and Novel Transcripts.
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PLoS Genet 12 (9) e1006294 [2016-09-00; online 2016-09-22]
Strategies to improve usability and preserve accuracy in biological sequence databases.
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Proteomics 16 (18) 2454-2460 [2016-09-00; online 2016-08-17]
DDLS Fellow Johan Bengtsson-Palme
Repeated LPS Injection Induces Distinct Changes in the Kynurenine Pathway in Mice.
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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
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
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J10 Chorea, psychotic symptoms and long survival in a subject with ELAC2 mutations
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How to talk about protein-level false discovery rates in shotgun proteomics.
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Data on the expression of cellular lncRNAs in human adenovirus infected cells.
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Conformation Traits and Gaits in the Icelandic Horse are Associated with Genetic Variants in Myostatin (MSTN).
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Comparative anatomical distribution of neuronal calcium-binding protein (NECAB) 1 and -2 in rodent and human spinal cord.
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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]
Benchmarking of algorithms for 3D tissue reconstruction
Kartasalo K, Latonen L, Visakorpi T, Nykter M, Ruusuvuori P
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DDLS Fellow Kimmo Kartasalo
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]
A software tool for studying the size and shape of human cardiomyocytes
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Biomedical Signal Processing and Control 30 (-) 134-139 [2016-09-00; online 2016-09-00]
DDLS Fellow Kimmo Kartasalo
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]
A Role for the Chromatin-Remodeling Factor BAZ1A in Neurodevelopment.
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Hum. Mutat. 37 (9) 964-975 [2016-09-00; online 2016-07-08]
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]
Affiliated researcher
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]
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]
High GC Content Causes De Novo Created Proteins to be Intrinsically Disordered
Basile W, Sachenkova O, Light S, Elofsson A
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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
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Fast Antibiotic Susceptibility Testing based on single cell growth rate measurements
Baltekin Ö, Boucharin A, Tano E, Andersson DI, Elf J
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Erratum to: A survey of best practices for RNA-seq data analysis.
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The Competing Mechanisms of Phosphate Monoester Dianion Hydrolysis.
Duarte F, Barrozo A, Åqvist J, Williams NH, Kamerlin SC
Journal of the American Chemical Society 138 (33) 10664-10673 [2016-08-24; online 2016-08-15]
Enantioselective Organocatalyzed Transformations of β-Ketoesters.
Govender T, Arvidsson PI, Maguire GE, Kruger HG, Naicker T
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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]
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]
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]
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]
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]
Deep Learning and Association Rule Mining for Predicting Drug Response in Cancer. A Personalised Medicine Approach
Vougas K, Krochmal M, Jackson T, ..., Bartek J, Gorgoulis VG
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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
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In Situ Proximity Ligation Assay (In Situ PLA) to Assess PTP-Protein Interactions.
Koch S, Helbing I, Böhmer SA, ..., Söderberg O, Böhmer FD
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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]
Metastasis Stimulation by Hypoxia and Acidosis-Induced Extracellular Lipid Uptake Is Mediated by Proteoglycan-Dependent Endocytosis.
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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
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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]
Large-scale ligand-based predictive modelling using support vector machines.
Alvarsson J, Lampa S, Schaal W, ..., Wikberg JE, Spjuth O
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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]
A genome-wide screening uncovers the role of CCAR2 as an antagonist of DNA end resection.
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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
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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
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]
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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Ruisheng Xiong SciLifeLab Fellow
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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JCI Insight 1 (10) e86837 [2016-07-07; online 2016-07-07]
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G3 6 (7) 1979-1989 [2016-07-07; online 2016-07-07]
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Brain 139 (Pt 7) 1958-1970 [2016-07-00; online 2016-05-05]
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J. Geophys. Res. Biogeosci. 121 (7) 1924-1933 [2016-07-00; online 2016-07-22]
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Antagonists of IGF:Vitronectin Interactions Inhibit IGF-I-Induced Breast Cancer Cell Functions.
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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
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Mechanisms of TGFβ-Induced Epithelial-Mesenchymal Transition.
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Conformational diversity and enantioconvergence in potato epoxide hydrolase 1.
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Genome-wide screen of cell-cycle regulators in normal and tumor cells identifies a differential response to nucleosome depletion
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Cryptosporidium as a testbed for single cell genome characterization of unicellular eukaryotes.
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Genetic heterogeneity in primary and relapsed mantle cell lymphomas: Impact of recurrent CARD11 mutations.
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iGEMS: an integrated model for identification of alternative exon usage events.
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Nucleic Acids Res. 44 (11) e109 [2016-06-20; online 2016-04-19]
Identification of Cancer Related Genes Using a Comprehensive Map of Human Gene Expression.
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Mechanism-Guided Discovery of an Esterase Scaffold with Promiscuous Amidase Activity
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Effects of Fluoxetine on Human Embryo Development.
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Garg S, Martin M, Marschall T
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Protein Z: A putative novel biomarker for early detection of ovarian cancer.
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Tumor acidosis enhances cytotoxic effects and autophagy inhibition by salinomycin on cancer cell lines and cancer stem cells.
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The histone methyltransferase EZH2 as a novel prosurvival factor in clinically aggressive chronic lymphocytic leukemia.
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YM155, a small molecule inhibitor of survivin expression, sensitizes cancer cells to hypericin-mediated photodynamic therapy.
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Reorganization of Lipid Diffusion by Myelin Basic Protein as Revealed by STED Nanoscopy.
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Erdinc Sezgin SciLifeLab Fellow
Recommendations on e-infrastructures for next-generation sequencing.
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Promiscuity in the Enzymatic Catalysis of Phosphate and Sulfate Transfer.
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Genetic Basis for Red Coloration in Birds.
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Mafalda Sousa Ferreira SciLifeLab Fellow
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 (Suppl 5) 194 [2016-06-06; online 2016-06-06]
Elevated levels of FN1 and CCL2 in bronchoalveolar lavage fluid from sarcoidosis patients.
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TT-seq maps the human transient transcriptome.
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DNA REPAIR. Drugging DNA repair.
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Science (New York, N.Y.) 352 (6290) 1178-1179 [2016-06-03; online 2016-06-04]
Prognostic impact of epigenetic classification in chronic lymphocytic leukemia: The case of subset #2.
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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
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c-Myb Enhances Breast Cancer Invasion and Metastasis through the Wnt/β-Catenin/Axin2 Pathway.
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Hummingbird: monitoring and analyzing flash X-ray imaging experiments in real time.
Daurer BJ, Hantke MF, Nettelblad C, Maia FR
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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]
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]
Identification of additional risk loci for stroke and small vessel disease: a meta-analysis of genome-wide association studies.
Neurology Working Group of the Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium, the Stroke Genetics Network (SiGN), and the International Stroke Genetics Consortium (ISGC)
Lancet Neurol 15 (7) 695-707 [2016-06-00; online 2016-04-07]
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]
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
FRI0014 Multiplex Screening of Cytokines in The Search for Disease Activity Markers of SLE
Eketjäll S, Idborg H, Gustafsson JT, ..., Gunnarsson I, Svenungsson E
Ann Rheum Dis 75 (-) 430-431 [2016-06-00; online 2016-06-00]
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]
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]
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]
Aryl Hydrocarbon Receptor-Interacting Protein-Like 1 in Cancer-Associated Retinopathy.
Dalin F, Adamus G, Yang S, ..., Kämpe O, Alimohammadi M
Ophthalmology 123 (6) 1401-1404 [2016-06-00; online 2016-02-04]
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]
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]
Affiliated researcher
Yamove! A Movement Synchrony Game That Choreographs Social Interaction
Isbister K, Márquez Segura E, Kirkpatrick S, ..., Cao G, Tang R
HT 12 (1) 74-102 [2016-05-31; online 2016-05-31]
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]
Genome-culture coevolution promotes rapid divergence of killer whale ecotypes.
Foote AD, Vijay N, Ávila-Arcos MC, ..., Gilbert MTP, Wolf JBW
Nat Commun 7 (-) 11693 [2016-05-31; online 2016-05-31]
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]
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]
Affiliated researcher
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]
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]
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]
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
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]
An Endothelial Gene Signature Score Predicts Poor Outcome in Patients with Endocrine-Treated, Low Genomic Grade Breast Tumors.
Tobin NP, Wennmalm K, Lindström LS, ..., Betsholtz C, Bergh J
Clin. Cancer Res. 22 (10) 2417-2426 [2016-05-15; online 2016-01-14]
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]
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]
Questioning the evidence for a Central Asian domestication origin of dogs.
Wang GD, Peng MS, Yang HC, Savolainen P, Zhang YP
Proc. Natl. Acad. Sci. U.S.A. 113 (19) E2554-E2555 [2016-05-10; online 2016-04-20]
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]
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]
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]
ProQ2: estimation of model accuracy implemented in Rosetta.
Uziela K, Wallner B
Bioinformatics 32 (9) 1411-1413 [2016-05-01; online 2016-01-05]
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]
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]
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]
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]
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]
Antigen arrays for profiling autoantibody repertoires.
Ayoglu B, Schwenk JM, Nilsson P
Bioanalysis 8 (10) 1105-1126 [2016-05-00; online 2016-04-21]
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]
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]
Abstract 620: Mutations in FLT1 and COL4A1 Protect Against Early Stage Atherosclerosis in Overfed Zebrafish Larvae
den Hoed M, Conrad L, Bandaru M, ..., Larsson A, Ingelsson E
Arterioscler. Thromb. Vasc. Biol. 36 (suppl_1) - [2016-05-00; online 2016-05-00]
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]
Staying Clear of the Dragons.
Elf J
Cell Systems 2 (4) 219-220 [2016-04-27; online 2016-04-27]
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]
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]
Microbial diversity: The tree of life comes of age.
Spang A, Ettema TJ
Nat. Microbiol 1 (-) 16056 [2016-04-26; online 2016-04-26]
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]
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]
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]
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]
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]
Genome wide meta-analysis identifies novel regulators of circulating serum progranulin
Krüger J, Scholz M, Gross A, ..., Kovacs P, Tönjes A
Diabetologie und Stoffwechsel 11 (S 01) - [2016-04-19; online 2016-04-19]
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
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]
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
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]
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]
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]
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]
3D‐Biodruck von Gewebe‐ und Organmodellen
Pati F, Gantelius J, Svahn HA
Angewandte Chemie 128 (15) 4728-4743 [2016-04-04; online 2016-02-19]
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]
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]
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]
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]
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]
Affiliated researcher
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]
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]
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]
The Need for Speed-Kinetic Limits of Drug Transporters.
Matsson P, Lundquist P, Artursson P
Trends Pharmacol. Sci. 37 (4) 243-245 [2016-04-00; online 2016-02-24]
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]
Role of calcium signaling for GDNF secretion, ureter branching and early nephron formation
Fontana JM, Jess DU, Blom H, Brismar H, Aperia A
The FASEB Journal 30 (S1) - [2016-04-00; online 2016-04-00]
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]
Affiliated researcher
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]
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]
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
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]
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]
Identification of a serum protein biomarker panel for the diagnosis of knee osteoarthritis
Lourido L, Ayoglu B, Fernández-Tajes J, ..., Nilsson P, Blanco FJ
Osteoarthritis and Cartilage 24 (-) S23 [2016-04-00; online 2016-04-00]
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]
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]
Fish from Head to Tail: The 9th European Zebrafish Meeting in Oslo.
Griffiths G, Müller F, Ledin J, ..., Press CM, Aleström P
Zebrafish 13 (2) 132-137 [2016-04-00; online 2016-02-09]
Fast adaptive local thresholding based on ellipse fit
Ranefall P, Sadanandan SK, Wahlby C
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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
Endurance Training Alters Expression of Over 3000 Isoforms and 34 Novel Transcripts in Human Skeletal Muscle
Lindholm M, Giacomello S, Solnestam BW, ..., Huss M, Sundberg CJ
The FASEB Journal 30 (S1) - [2016-04-00; online 2016-04-00]
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]
Super-resolution microscopy reveals γ-secretase at both sides of the neuronal synapse.
Schedin-Weiss S, Caesar I, Winblad B, Blom H, Tjernberg LO
Acta Neuropathol Commun 4 (-) 29 [2016-03-31; online 2016-03-31]
Untangling Cortico-Striatal Connectivity and Cross-Frequency Coupling in L-DOPA-Induced Dyskinesia.
Belić JJ, Halje P, Richter U, Petersson P, Hellgren Kotaleski J
Front Syst Neurosci 10 (-) 26 [2016-03-30; online 2016-03-30]
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]
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]
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]
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]
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]
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]
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]
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]
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]
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
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]
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]
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
Computational Pan-Genomics: Status, Promises and Challenges
Marschall T, Marz M, Abeel T, ..., Ye K, Schönhuth A
- - (-) - [2016-03-12; online 2016-03-12]
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]
Engineering Cellular Metabolism.
Nielsen J, Keasling JD
Cell 164 (6) 1185-1197 [2016-03-10; online 2016-03-12]
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]
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]
Evolution: Mitochondria in the second act.
Ettema TJ
Nature 531 (7592) 39-40 [2016-03-03; online 2016-02-03]
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 (Suppl 4) 69 [2016-03-02; online 2016-03-02]
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]
An ATM/Wip1-dependent timer controls the minimal duration of a DNA-damage mediated cell cycle arrest
Jaiswal H, Benada J, Müllers E, ..., Macurek L, Lindqvist A
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Estrogen receptor beta as target for colorectal cancer prevention.
Williams C, DiLeo A, Niv Y, Gustafsson JÅ
Cancer Lett. 372 (1) 48-56 [2016-03-01; online 2015-12-18]
Affiliated researcher
Translating epithelial mesenchymal transition markers into the clinic: Novel insights from proteomics.
Vergara D, Simeone P, Franck J, ..., Salzet M, Maffia M
EuPA Open Proteom 10 (-) 31-41 [2016-03-00; online 2016-01-06]
Towards a functional definition of the mitochondrial human proteome.
Fasano M, Alberio T, Babu M, Lundberg E, Urbani A
EuPA Open Proteom 10 (-) 24-27 [2016-03-00; online 2016-01-07]
The metabolic fingerprint of p,p'-DDE and HCB exposure in humans.
Salihovic S, Ganna A, Fall T, ..., Ingelsson E, Lind L
Environ Int 88 (-) 60-66 [2016-03-00; online 2015-12-22]
Affiliated researcher
T-cell receptor-HLA-DRB1 associations suggest specific antigens in pulmonary sarcoidosis.
Grunewald J, Kaiser Y, Ostadkarampour M, ..., Ronninger M, Eklund A
Eur. Respir. J. 47 (3) 898-909 [2016-03-00; online 2015-11-19]
Affiliated researcher
Small protein domains fold inside the ribosome exit tunnel.
Marino J, von Heijne G, Beckmann R
FEBS Lett. 590 (5) 655-660 [2016-03-00; online 2016-02-25]
Second generation sequencing of microRNA in Human Bone Cells treated with Parathyroid Hormone or Dexamethasone.
Laxman N, Rubin CJ, Mallmin H, ..., Tellgren-Roth C, Kindmark A
Bone 84 (-) 181-188 [2016-03-00; online 2015-12-31]
Affiliated researcher
Rapid and straightforward transesterification of sulfonyl carbamates
Isaksson R, Kumpiņa I, Larhed M, Wannberg J
Tetrahedron Letters 57 (13) 1476-1478 [2016-03-00; online 2016-03-00]
Ouabain induces the kynurenine pathway in human primary CD14 monocytes
Kalushkova A, Skaftason AT, Öberg F, Jernberg-Wiklund H
Neurology, Psychiatry and Brain Research 22 (1) 13 [2016-03-00; online 2016-03-00]
Oncogene-Induced Senescence in Pituitary Adenomas--an Immunohistochemical Study.
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]
Affiliated researcher
Normalization of circulating microRNA expression data obtained by quantitative real-time RT-PCR.
Marabita F, de Candia P, Torri A, ..., Abrignani S, Rossi RL
Brief. Bioinformatics 17 (2) 204-212 [2016-03-00; online 2015-08-03]
Affiliated researcher
Innovation in the prognostication of chronic lymphocytic leukemia: how far beyond TP53 gene analysis can we go?
Pospisilova S, Sutton LA, Malcikova J, ..., Ghia P, European Research Initiative on CLL (ERIC)
Haematologica 101 (3) 263-265 [2016-03-00; online 2016-03-02]
Identification of novel genetic causes of Rett syndrome-like phenotypes.
Lopes F, Barbosa M, Ameur A, ..., Pinto D, Maciel P
J. Med. Genet. 53 (3) 190-199 [2016-03-00; online 2016-01-06]
Geographical range in liverworts: does sex really matter?
Laenen B, Machac A, Gradstein SR, ..., Shaw J, Vanderpoorten A
J. Biogeogr. 43 (3) 627-635 [2016-03-00; online 2015-11-04]
Affiliated researcher
Gene expression signatures, pathways and networks in carotid atherosclerosis.
Perisic L, Aldi S, Sun Y, ..., Paulsson-Berne G, Hedin U
J. Intern. Med. 279 (3) 293-308 [2016-03-00; online 2015-11-30]
Affiliated researcher
Flow of Information in Biological Systems.
Masoudi-Nejad A, Zenil H
Semin. Cell Dev. Biol. 51 (-) 1-2 [2016-03-00; online 2016-03-19]
Combined inhibition of DDR1 and Notch signaling is a therapeutic strategy for KRAS-driven lung adenocarcinoma.
Ambrogio C, Gómez-López G, Falcone M, ..., Santamaría D, Barbacid M
Nat. Med. 22 (3) 270-277 [2016-03-00; online 2016-02-08]
Altered DNA methylation of glycolytic and lipogenic genes in liver from obese and type 2 diabetic patients.
Kirchner H, Sinha I, Gao H, ..., Dahlman-Wright K, Zierath JR
Mol Metab 5 (3) 171-183 [2016-03-00; online 2016-01-02]
A comparative study of phosphopeptide-selective techniques for a sub-proteome of a complex biological sample.
Källsten M, Bergquist J, Zhao H, Konzer A, Lind SB
Anal Bioanal Chem 408 (9) 2347-2356 [2016-03-00; online 2016-02-17]
Whole-exome sequencing in relapsing chronic lymphocytic leukemia: clinical impact of recurrent RPS15 mutations.
Ljungström V, Cortese D, Young E, ..., Sjöblom T, Rosenquist R
Blood 127 (8) 1007-1016 [2016-02-25; online 2015-12-16]
Affiliated researcher
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]
Affiliated researcher
An Efficient Protecting-Group-Free Synthesis of Vinylic Sulfoximines via Horner–Wadsworth–Emmons Reaction
Naicker T, Arvidsson P, Chinthakindi P, ..., Govender T, Kruger H
Synlett 27 (09) 1423-1427 [2016-02-24; online 2016-02-24]
Anoctamin 2 identified as an autoimmune target in multiple sclerosis.
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]
Genome-culture coevolution promotes rapid divergence in the killer whale
Foote AD, Vijay N, Ávila-Arcos MC, ..., P. Gilbert MT, Wolf JBW
- - (-) - [2016-02-22; online 2016-02-22]
Stepwise nucleosome translocation by RSC remodeling complexes.
Harada BT, Hwang WL, Deindl S, ..., Bartholomew B, Zhuang X
Elife 5 (-) - [2016-02-19; online 2016-02-19]
SciLifeLab Fellow Sebastian Deindl
Microwave Promoted Transcarbamylation Reaction of Sulfonylcarbamates under Continuous-Flow Conditions
Kumpiņa I, Isaksson R, Sävmarker J, Wannberg J, Larhed M
Org. Process Res. Dev. 20 (2) 440-445 [2016-02-19; online 2016-01-05]
AZD3293: A Novel, Orally Active BACE1 Inhibitor with High Potency and Permeability and Markedly Slow Off-Rate Kinetics.
Eketjäll S, Janson J, Kaspersson K, ..., Alexander RC, Cebers G
J. Alzheimers Dis. 50 (4) 1109-1123 [2016-02-19; online 2016-02-19]
GeneiASE: Detection of condition-dependent and static allele-specific expression from RNA-seq data without haplotype information.
Edsgärd D, Iglesias MJ, Reilly SJ, ..., Odeberg J, Emanuelsson O
Sci Rep 6 (-) 21134 [2016-02-18; online 2016-02-18]
ERK and AKT phosphorylation status in lung cancer and emphysema using nanocapillary isoelectric focusing.
Crosbie PA, Crosbie EJ, Aspinall-O'Dea M, ..., Pierce A, Whetton AD
BMJ Open Respir Res 3 (1) e000114 [2016-02-17; online 2016-02-17]
Genomic inference of the metabolism of cosmopolitan subsurface Archaea, Hadesarchaea.
Baker BJ, Saw JH, Lind AE, ..., Teske AP, Ettema TJ
Nat. Microbiol 1 (-) 16002 [2016-02-15; online 2016-02-15]
Exome sequencing in one family with gastric- and rectal cancer.
Thutkawkorapin J, Picelli S, Kontham V, ..., Nilsson D, Lindblom A
BMC Genet. 17 (-) 41 [2016-02-13; online 2016-02-13]
Discovery of the First Potent and Selective Inhibitors of Human dCTP Pyrophosphatase 1.
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]
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 [2016-02-08; online 2015-12-31]
Affiliated researcher
Stereoselective synthesis towards unnatural proline based amino acids
S.Makhathini S, Das SK, Singh T, ..., Govender T, Naicker T
- 2016 (3) 134-144 [2016-02-07; online 2016-02-07]
Systems Proteomics View of the Endogenous Human Claudin Protein Family.
Liu F, Koval M, Ranganathan S, ..., Kelleher NL, Baker MS
J. Proteome Res. 15 (2) 339-359 [2016-02-05; online 2016-01-12]
Affiliated researcher
TOPBP1 regulates RAD51 phosphorylation and chromatin loading and determines PARP inhibitor sensitivity.
Moudry P, Watanabe K, Wolanin KM, ..., Lukas J, Bartek J
J. Cell Biol. 212 (3) 281-288 [2016-02-01; online 2016-01-25]
Proteome-wide survey of the autoimmune target repertoire in autoimmune polyendocrine syndrome type 1.
Landegren N, Sharon D, Freyhult E, ..., Snyder M, Kämpe O
Sci Rep 6 (-) 20104 [2016-02-01; online 2016-02-01]
Genome-wide meta-analysis uncovers novel loci influencing circulating leptin levels.
Kilpeläinen TO, Carli JF, Skowronski AA, ..., Leibel RL, Loos RJ
Nat Commun 7 (-) 10494 [2016-02-01; online 2016-02-01]
UGT2B17 expression: a novel prognostic marker within IGHV-mutated chronic lymphocytic leukemia?
Bhoi S, Baliakas P, Cortese D, ..., Sutton LA, Mansouri L
Haematologica 101 (2) e63-e65 [2016-02-00; online 2015-11-20]
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]
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]
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]
Segmentation and Track-Analysis in Time-Lapse Imaging of Bacteria
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]
Revealing the Mechanism for Conformational Changes from Structurally Rich Ensembles
Orellana L, Yoluk O, Orozco M, Lindahl E
Biophysical Journal 110 (3) 54a [2016-02-00; online 2016-02-00]
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]
Affiliated researcher
Mechanisms of action of bone morphogenetic proteins in cancer.
Davis H, Raja E, Miyazono K, Tsubakihara Y, Moustakas A
Cytokine Growth Factor Rev. 27 (-) 81-92 [2016-02-00; online 2015-11-24]
Affiliated researcher
From CRYO-EM Densities to Atom Coordinates and Ensembles with Bayes Approach
Blau C, Lenner N, Kutzner C, Grubmuller H, Lindahl E
Biophysical Journal 110 (3) 156a-157a [2016-02-00; online 2016-02-00]
Exome Sequencing of Uterine Leiomyosarcomas Identifies Frequent Mutations in TP53, ATRX, and MED12.
Mäkinen N, Aavikko M, Heikkinen T, ..., Bützow R, Vahteristo P
PLoS Genet 12 (2) e1005850 [2016-02-00; online 2016-02-18]
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]
Affiliated researcher
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]
Complete Knockout of Endogenous Mdr1 (Abcb1) in MDCK Cells by CRISPR-Cas9.
Simoff I, Karlgren M, Backlund M, ..., Matsson P, Artursson P
J Pharm Sci 105 (2) 1017-1021 [2016-02-00; online 2016-02-13]
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]
Affiliated researcher
A Single Mutation in GLIC Reveals Both the Potentiating and the Inhibitory Nature of Propofol
Heusser SA, Howard RJ, Pouya I, ..., Harris RA, Lindahl E
Biophysical Journal 110 (3) 456a [2016-02-00; online 2016-02-00]
A Reciprocal Voltage Sensor-To-Pore Coupling in C-Type Inactivation
Conti L, Renhorn J, Gabrielsson A, ..., Lindahl E, Elinder F
Biophysical Journal 110 (3) 104a [2016-02-00; online 2016-02-00]
Resignation Syndrome: Catatonia? Culture-Bound?
Sallin K, Lagercrantz H, Evers K, ..., Hjern A, Petrovic P
Front Behav Neurosci 10 (-) 7 [2016-01-29; online 2016-01-29]
Cellular microenvironment controls the nuclear architecture of breast epithelia through β1-integrin.
Maya-Mendoza A, Bartek J, Jackson DA, Streuli CH
Cell Cycle 15 (3) 345-356 [2016-01-29; online 2016-01-29]
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]
Recent advances in understanding Type 1 Diabetes.
Christoffersson G, Rodriguez-Calvo T, von Herrath M
F1000Res 5 (-) - [2016-01-27; online 2016-01-27]
Gustaf Christoffersson SciLifeLab Fellow
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]
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]
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]
Affiliated researcher
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]
Affiliated researcher
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]
Affiliated researcher
Read-Based Phasing of Related Individuals
Garg S, Martin M, Marschall T
- - (-) - [2016-01-18; online 2016-01-18]
Retraction for Watthanasurorot et al., 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. 90 (2) 1155 [2016-01-15; online 2015-12-30]
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]
Affiliated researcher
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]
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]
Affiliated researcher
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]
Affiliated researcher
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]
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]
Affiliated researcher
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]
Affiliated researcher
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]
The (elusive) role of the SMC5/6 complex.
Fernandez-Capetillo O
Cell Cycle 15 (6) 775-776 [2016-01-09; online 2016-01-09]
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]
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]
Affiliated researcher
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]
Affiliated researcher
A carbon budget for the Amundsen Sea Polynya, Antarctica: Estimating net community production and export in a highly productive polar ecosystem
Yager P, Sherrell R, Stammerjohn S, ..., Swalethorp R, van Dijken G
- 4 (-) - [2016-01-01; online 2016-12-09]
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
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]
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]
Affiliated researcher
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]
Affiliated researcher
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]
Affiliated researcher
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]
Affiliated researcher
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]
Affiliated researcher
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]
Affiliated researcher
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]
Affiliated researcher
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]
Affiliated researcher
Strategies to Map the Microbiome of Freshwater Lakes: Sampling and Context
Bertilsson S
- - (-) 199-217 [2016-00-00; online 2016-05-03]
Rolling Circle Amplification with Padlock Probes for In Situ Detection of RNA Analytes
Mezger A, Kühnemund M, Nilsson M
- - (-) 99-105 [2016-00-00; online 2016-11-10]
Optofludics in microstructured fibers combining particle elasto-inertial focusing and fluorescence
Etcheverry S, Faridi A, Ramachandraiah H, ..., Laurell F, Russom A
- - (-) SW4G.6 [2016-00-00; online 2016-00-00]
Mass Spectrometry-Based Proteomics in Biomarker Discovery for Neurodegenerative Diseases
Musunuri S, Shevchenko G, Bergquist J
- - (-) 253-282 [2016-00-00; online 2016-04-14]
Graph Centrality Based Prediction of Cancer Genes
Weishaupt H, Johansson P, Engström C, ..., Silvestrov S, Swartling FJ
- - (-) 275-311 [2016-00-00; online 2017-02-11]
Genome-Wide Association Studies (GWAS) of Adiposity
Ingelsson E, Kilpeläinen TO
- - (-) 91-109 [2016-00-00; online 2016-04-12]
Feature Augmented Deep Neural Networks for Segmentation of Cells
Sadanandan SK, Ranefall P, Wählby C
- - (-) 231-243 [2016-00-00; online 2016-09-18]
Comparison of Flow Cytometry and Image-Based Screening for Cell Cycle Analysis
Matuszewski DJ, Sintorn IM, Puigvert JC, Wählby C
- - (-) 623-630 [2016-00-00; online 2016-07-01]
Bioproduction of Fuels: An Introduction
Kim J, Nielsen J
- - (-) 1-23 [2016-00-00; online 2017-01-30]

Publications 9.5.1