Publications 2020

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169 publications

PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
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
PubMed DOI Crossref
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
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
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
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
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
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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
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 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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
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
PubMed DOI Crossref
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
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
PubMed DOI Crossref
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
DOI Crossref
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
PubMed DOI Crossref
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
PubMed DOI Crossref
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
DOI Crossref
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
DOI Crossref
Chapter 7. Bridging the Gap Between Atomistic Molecular Dynamics Simulations and Wet-lab Experimental Techniques: Applications to Membrane Proteins
Delemotte L
- - (-) 247-286 [2020-00-00; online 2020-00-00]
Lucie Delemotte SciLifeLab Fellow
SciLifeLab Data Centre
Publications 9.5.1