Publications 2022

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232 publications

PubMed DOI Crossref
Lipoic Acid Conjugated Boron Hybrids Enhance Wound Healing and Antimicrobial Processes.
Türkez H, Yıldırım ÖÇ, Öner S, ..., Yapça ÖE, Mardinoğlu A
Pharmaceutics 15 (1) - [2022-12-31; online 2022-12-31]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Imaging of the Glucose-Dependent Insulinotropic Polypeptide Receptor Using a Novel Radiolabeled Peptide Rationally Designed Based on Endogenous GIP and Synthetic Exendin-4 Sequences.
Velikyan I, Bossart M, Haack T, ..., Wagner M, Eriksson O
Pharmaceuticals (Basel, Switzerland) 16 (1) - [2022-12-31; online 2022-12-31]
Olof Eriksson SciLifeLab Fellow
PubMed DOI Crossref
Obesity-Associated Neurodegeneration Pattern Mimics Alzheimer's Disease in an Observational Cohort Study.
Morys F, Potvin O, Zeighami Y, ..., Dagher A, Alzheimer’s Disease Neuroimaging Initiative
J. Alzheimers Dis. 91 (3) 1059-1071 [2022-12-25; online 2022-12-25]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Modulating glycosphingolipid metabolism and autophagy improves outcomes in pre-clinical models of myeloma bone disease.
Leng H, Zhang H, Li L, ..., Simon AK, Horwood NJ
Nat Commun 13 (1) 7868 [2022-12-22; online 2022-12-22]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Systematic comparison of modeling fidelity levels and parameter inference settings applied to negative feedback gene regulation
Coulier A, Singh P, Sturrock M, Hellander A
PLoS Comput Biol 18 (12) e1010683 [2022-12-15; online 2022-12-15]
Prashant Singh SciLifeLab Fellow
PubMed DOI Crossref
Strobealign: flexible seed size enables ultra-fast and accurate read alignment.
Sahlin K
Genome Biol. 23 (1) 260 [2022-12-15; online 2022-12-15]
Kristoffer Sahlin SciLifeLab Fellow
PubMed DOI Crossref
Linking Individual Differences in Personalized Functional Network Topography to Psychopathology in Youth.
Cui Z, Pines AR, Larsen B, ..., Fan Y, Satterthwaite TD
Biol. Psychiatry 92 (12) 973-983 [2022-12-15; online 2022-05-18]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Estimating diagnostic uncertainty in artificial intelligence assisted pathology using conformal prediction.
Olsson H, Kartasalo K, Mulliqi N, ..., Spjuth O, Eklund M
Nat Commun 13 (1) 7761 [2022-12-15; online 2022-12-15]
DDLS Fellow Kimmo Kartasalo
PubMed DOI Crossref
In Vitro Transcriptome Analysis of Cobalt Boride Nanoparticles on Human Pulmonary Alveolar Cells.
Arslan ME, Tatar A, Yıldırım ÖÇ, ..., Mardinoğlu A, Türkez H
Materials (Basel) 15 (23) - [2022-12-06; online 2022-12-06]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Development of l-Dopa-containing diketopiperazines as blood-brain barrier shuttle.
Cornacchia C, Marinelli L, Di Rienzo A, ..., Di Stefano A, Cacciatore I
Eur J Med Chem 243 (-) 114746 [2022-12-05; online 2022-09-08]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Madagascar's extraordinary biodiversity: Threats and opportunities.
Ralimanana H, Perrigo AL, Smith RJ, ..., Zizka A, Antonelli A
Science (New York, N.Y.) 378 (6623) eadf1466 [2022-12-02; online 2022-12-02]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Madagascar's extraordinary biodiversity: Evolution, distribution, and use.
Antonelli A, Smith RJ, Perrigo AL, ..., Zizka A, Ralimanana H
Science (New York, N.Y.) 378 (6623) eabf0869 [2022-12-02; online 2022-12-02]
DDLS Fellow Tobias Andermann
DOI Crossref
High-efficiency transfection of<i>Acanthamoeba castellanii</i>using a cationic polymer
Moreno AB, Ek V, Eriksson J, Sellin ME, Guy L
- - (-) - [2022-12-01; online 2022-12-01]
Mikael Sellin SciLifeLab Fellow
PubMed DOI Crossref
Teasing apart the joint effect of demography and natural selection in the birth of a contact zone.
Li L, Milesi P, Tiret M, ..., Wu HX, Lascoux M
New Phytol. 236 (5) 1976-1987 [2022-12-00; online 2022-09-30]
Pascal Milesi SciLifeLab Fellow
DOI Crossref
Inorganic nanoparticles for oral drug delivery: opportunities, barriers, and future perspectives
Asad S, Jacobsen AC, Teleki A
Current Opinion in Chemical Engineering 38 (-) 100869 [2022-12-00; online 2022-12-00]
Alexandra Teleki SciLifeLab Fellow
PubMed DOI Crossref
How broad is the selfing syndrome? Insights from convergent evolution of gene expression across species and tissues in the Capsella genus.
Zhang Z, Kryvokhyzha D, Orsucci M, ..., Milesi P, Lascoux M
New Phytol. 236 (6) 2344-2357 [2022-12-00; online 2022-09-30]
Pascal Milesi SciLifeLab Fellow
PubMed DOI Crossref
Grey matter morphology in women with premenstrual dysphoric disorder treated with a selective progesterone receptor modulator.
Kaltsouni E, Dubol M, Wikström J, ..., Sundström-Poromaa I, Comasco E
Eur Neuropsychopharmacol 65 (-) 35-43 [2022-12-00; online 2022-11-04]
Erika Comasco SciLifeLab Fellow
PubMed DOI Crossref
Genomic Profiling Identifies Putative Pathogenic Alterations in NSCLC Brain Metastases.
Nicoś M, Harbers L, Patrucco E, ..., Ambrogio C, Crosetto N
JTO Clin Res Rep 3 (12) 100435 [2022-12-00; online 2022-11-11]
Magda Bienko SciLifeLab Fellow
PubMed DOI Crossref
Salmonella enterica serovar Cerro displays a phylogenetic structure and genomic features consistent with virulence attenuation and adaptation to cattle.
Cohn AR, Orsi RH, Carroll LM, ..., Wiedmann M, Cheng RA
Front Microbiol 13 (-) 1005215 [2022-11-30; online 2022-11-30]
DDLS Fellow Laura Carroll
PubMed DOI Crossref
Editorial: Application of systems biology in molecular characterization and diagnosis of cancer, Volume II.
Wei Y, Zhang C, Mardinoglu A, Zhang P
Front Mol Biosci 9 (-) 1089463 [2022-11-25; online 2022-11-25]
Adil Mardinoglu SciLifeLab Fellow
DOI Crossref
Spatial transcriptomics of T and B cell receptors uncovers lymphocyte clonal dynamics in human tissue
Engblom C, Thrane K, Lin Q, ..., Lundeberg J, Frisén J
- - (-) - [2022-11-24; online 2022-11-24]
Camilla Engblom SciLifeLab Fellow
PubMed DOI Crossref
Toxicity of Glycyl-l-Prolyl-l-Glutamate Pseudotripeptides: Cytotoxic, Oxidative, Genotoxic, and Embryotoxic Perspectives.
Turkez H, Ozdemir Tozlu O, Tatar A, ..., Di Stefano A, Mardinoglu A
J Toxicol 2022 (-) 3775194 [2022-11-19; online 2022-11-19]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
CBP-HSF2 structural and functional interplay in Rubinstein-Taybi neurodevelopmental disorder.
de Thonel A, Ahlskog JK, Daupin K, ..., Sistonen L, Mezger V
Nat Commun 13 (1) 7002 [2022-11-16; online 2022-11-16]
Anniina Vihervaara SciLifeLab Fellow
DOI Crossref
The global groundwater resistome: core antibiotic resistance genes, their dynamics and drivers
Kampouris ID, Bengtsson-Palme J, Babin D, ..., Berendonk TU, Klümper U
- - (-) - [2022-11-15; online 2022-11-15]
DDLS Fellow Johan Bengtsson-Palme
PubMed DOI Crossref
Structure of the reduced microsporidian proteasome bound by PI31-like peptides in dormant spores.
Jespersen N, Ehrenbolger K, Winiger RR, ..., Vossbrinck CR, Barandun J
Nat Commun 13 (1) 6962 [2022-11-15; online 2022-11-15]
Jonas Barandun SciLifeLab Fellow
PubMed DOI Crossref
Multi-foci parallelised RESOLFT nanoscopy in an extended field-of-view.
Casas Moreno X, Pennacchietti F, Minet G, ..., Barabas F, Testa I
J Microsc - (-) - [2022-11-14; online 2022-11-14]
Ilaria Testa SciLifeLab Fellow
PubMed DOI Crossref
Genomic trajectories of a near-extinction event in the Chatham Island black robin.
von Seth J, van der Valk T, Lord E, ..., Robertson BC, Dussex N
BMC Genomics 23 (1) 747 [2022-11-10; online 2022-11-10]
DDLS Fellow Tom van der Valk
PubMed DOI Crossref
Super-Resolution Microscopy Opens New Doors to Life at the Nanoscale.
Fuhrmann M, Gockel N, Arizono M, ..., Testa I, Willig KI
J. Neurosci. 42 (45) 8488-8497 [2022-11-09; online 2022-11-10]
Ilaria Testa SciLifeLab Fellow
PubMed DOI Crossref
FRET-FISH probes chromatin compaction at individual genomic loci in single cells.
Mota A, Berezicki S, Wernersson E, ..., Crosetto N, Bienko M
Nat Commun 13 (1) 6680 [2022-11-05; online 2022-11-05]
Magda Bienko SciLifeLab Fellow
DOI Crossref
Lineage-specific targets of positive selection in three leaf beetles with different defence capacity against a parasitic wasp
Yang X, Wheat C, Slotte T, Hamback P
- - (-) - [2022-11-04; online 2022-11-04]
SciLifeLab Fellow Tanja Slotte
DOI Crossref
Fungal infection drives metabolic reprogramming in epithelial cells via aerobic glycolysis and an alternative TCA cycle shunt
Pellon A, Nasab SDS, Bidkhori G, ..., Shoaie S, Moyes D
- - (-) - [2022-11-01; online 2022-11-01]
Saeed Shoaie SciLifeLab Fellow
PubMed DOI Crossref
Pregnancy induces pancreatic insulin secretion in women with long-standing type 1 diabetes.
Espes D, Magnusson L, Caballero-Corbalan J, ..., Casas R, Carlsson PO
BMJ Open Diabetes Res Care 10 (6) - [2022-11-00; online 2022-11-10]
Daniel Espes SciLifeLab Fellow
PubMed DOI Crossref
Higher risk of severe hypoglycemia in children and adolescents with a rapid loss of C-peptide during the first 6 years after type 1 diabetes diagnosis.
Grönberg A, Espes D, Carlsson PO, Ludvigsson J
BMJ Open Diabetes Res Care 10 (6) e002991 [2022-11-00; online 2022-11-18]
Daniel Espes SciLifeLab Fellow
PubMed DOI Crossref
Curation of BIDS (CuBIDS): A workflow and software package for streamlining reproducible curation of large BIDS datasets.
Covitz S, Tapera TM, Adebimpe A, ..., Cieslak M, Satterthwaite TD
NeuroImage 263 (-) 119609 [2022-11-00; online 2022-09-03]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Chemical traits of cerebral amyloid angiopathy in familial British-, Danish-, and non-Alzheimer's dementias.
Michno W, Koutarapu S, Camacho R, ..., Lashley T, Hanrieder J
J. Neurochem. 163 (3) 233-246 [2022-11-00; online 2022-09-25]
SciLifeLab Fellow Wojciech Michno
PubMed DOI Crossref
Cohort profile: the Swedish Maternal Microbiome project (SweMaMi) - assessing the dynamic associations between the microbiome and maternal and neonatal adverse events.
Fransson E, Gudnadottir U, Hugerth LW, ..., Brusselaers N, Engstrand L
BMJ Open 12 (10) e065825 [2022-10-26; online 2022-10-26]
DDLS Fellow Luisa Hugerth
PubMed DOI Crossref
Genomic analyses of the Linum distyly supergene reveal convergent evolution at the molecular level.
Gutiérrez-Valencia J, Fracassetti M, Berdan EL, ..., Arroyo J, Slotte T
Curr. Biol. 32 (20) 4360-4371.e6 [2022-10-24; online 2022-09-09]
SciLifeLab Fellow Tanja Slotte
PubMed DOI Crossref
Structure-Based Discovery of Negative Allosteric Modulators of the Metabotropic Glutamate Receptor 5.
Kampen S, Rodríguez D, Jørgensen M, ..., Lebon G, Carlsson J
ACS chemical biology 17 (10) 2744-2752 [2022-10-21; online 2022-09-23]
Jens Carlsson SciLifeLab Fellow
PubMed DOI Crossref
Influence of the extracellular domain size on the dynamic behavior of membrane proteins.
Gurdap CO, Wedemann L, Sych T, Sezgin E
Biophys. J. 121 (20) 3826-3836 [2022-10-18; online 2022-09-14]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Cholesterol's balancing act: Defying the status quo.
Doktorova M, Levental I
Biophys. J. 121 (20) 3771-3773 [2022-10-18; online 2022-08-30]
DDLS Fellow Milka Doktorova
PubMed DOI Crossref
In Vitro and In Vivo Neuroprotective Effects of Sarcosine.
Tanas A, Tozlu ÖÖ, Gezmiş T, ..., Mardinoğlu A, Türkez H
Biomed Res Int 2022 (-) 5467498 [2022-10-15; online 2022-10-15]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Far Red-Shifted CdTe Quantum Dots for Multicolour Stimulated Emission Depletion Nanoscopy.
Alvelid J, Bucci A, Testa I
Chemphyschem - (-) e202200698 [2022-10-14; online 2022-10-14]
Ilaria Testa SciLifeLab Fellow
PubMed DOI Crossref
Extending fluorescence anisotropy to large complexes using reversibly switchable proteins.
Volpato A, Ollech D, Alvelid J, ..., Ingaramo M, Testa I
Nat. Biotechnol. - (-) - [2022-10-10; online 2022-10-10]
Ilaria Testa SciLifeLab Fellow
PubMed DOI Crossref
Correlative Chemical Imaging Identifies Amyloid Peptide Signatures of Neuritic Plaques and Dystrophy in Human Sporadic Alzheimer's Disease.
Koutarapu S, Ge J, Jha D, ..., Michno W, Hanrieder J
Brain Connect - (-) - [2022-10-07; online 2022-10-07]
SciLifeLab Fellow Wojciech Michno
PubMed DOI Crossref
A multi-omic analysis of MCF10A cells provides a resource for integrative assessment of ligand-mediated molecular and phenotypic responses.
Gross SM, Dane MA, Smith RL, ..., Gray JW, Heiser LM
Commun Biol 5 (1) 1066 [2022-10-07; online 2022-10-07]
Cemal Erdem DDLS Fellow
PubMed DOI Crossref
Molecular programming modulates hepatic lipid metabolism and adult metabolic risk in the offspring of obese mothers in a sex-specific manner.
Savva C, Helguero LA, González-Granillo M, ..., Kutter C, Korach-André M
Commun Biol 5 (1) 1057 [2022-10-04; online 2022-10-04]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Probing effects of the SARS-CoV-2 E protein on membrane curvature and intracellular calcium.
Mehregan A, Pérez-Conesa S, Zhuang Y, ..., Ulens C, Delemotte L
Biochim Biophys Acta Biomembr 1864 (10) 183994 [2022-10-01; online 2022-06-18]
Lucie Delemotte SciLifeLab Fellow
PubMed DOI Crossref
Noncoding RNAs and RNA-binding proteins: emerging governors of liver physiology and metabolic diseases.
Sommerauer C, Kutter C
Am. J. Physiol., Cell Physiol. 323 (4) C1003-C1017 [2022-10-01; online 2022-08-15]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Unravelling the Phylogeny of a Common Intestinal Protist: Intrageneric Diversity of Endolimax.
Hocke EF, Jamy M, Burki F, Clark CG, Stensvold CR
Protist 173 (5) 125908 [2022-10-00; online 2022-09-07]
Fabien Burki SciLifeLab Fellow
PubMed DOI Crossref
The mGlu5 Receptor Protomer-Mediated Dopamine D2 Receptor Trans-Inhibition Is Dependent on the Adenosine A2A Receptor Protomer: Implications for Parkinson's Disease.
Romero-Fernandez W, Taura JJ, Crans RAJ, ..., Fuxe K, Borroto-Escuela DO
Mol. Neurobiol. 59 (10) 5955-5969 [2022-10-00; online 2022-07-12]
Jens Carlsson SciLifeLab Fellow
PubMed DOI Crossref
Target-enriched nanopore sequencing and de novo assembly reveals co-occurrences of complex on-target genomic rearrangements induced by CRISPR-Cas9 in human cells.
Geng K, Merino LG, Wedemann L, ..., White RJ, Kutter C
Genome Res 32 (10) 1876-1891 [2022-10-00; online 2022-09-30]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Spatiotemporally controlled generation of NTPs for single-molecule studies.
Sabantsev A, Mao G, Aguirre Rivera J, ..., Khodorkovskiy M, Deindl S
Nat. Chem. Biol. 18 (10) 1144-1151 [2022-10-00; online 2022-09-21]
SciLifeLab Fellow Sebastian Deindl
PubMed DOI Crossref
Markov state modelling reveals heterogeneous drug-inhibition mechanism of Calmodulin.
Westerlund AM, Sridhar A, Dahl L, ..., Bodnar AY, Delemotte L
PLoS Comput Biol 18 (10) e1010583 [2022-10-00; online 2022-10-07]
Lucie Delemotte SciLifeLab Fellow
PubMed DOI Crossref
Global patterns and rates of habitat transitions across the eukaryotic tree of life.
Jamy M, Biwer C, Vaulot D, ..., Massana R, Burki F
Nat Ecol Evol 6 (10) 1458-1470 [2022-10-00; online 2022-08-04]
Fabien Burki SciLifeLab Fellow
PubMed DOI Crossref
Event-triggered STED imaging.
Alvelid J, Damenti M, Sgattoni C, Testa I
Nat. Methods 19 (10) 1268-1275 [2022-10-00; online 2022-09-08]
Ilaria Testa SciLifeLab Fellow
PubMed DOI Crossref
Elevation and plant species identity jointly shape a diverse arbuscular mycorrhizal fungal community in the High Arctic.
Rasmussen PU, Abrego N, Roslin T, ..., Hugerth LW, Tack AJM
New Phytol. 236 (2) 671-683 [2022-10-00; online 2022-07-15]
DDLS Fellow Luisa Hugerth
PubMed DOI Crossref
Chronic hyperinsulinemia promotes human hepatocyte senescence.
Baboota RK, Spinelli R, Erlandsson MC, ..., Kahn CR, Smith U
Mol Metab 64 (-) 101558 [2022-10-00; online 2022-07-21]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Di-n-Butyl Phthalate and Its Monoester Metabolite Impairs Steroid Hormone Biosynthesis in Human Cells: Mechanistic In Vitro Studies.
Källsten L, Pierozan P, Martin JW, Karlsson O
Cells 11 (19) - [2022-09-27; online 2022-09-27]
Oskar Karlsson SciLifeLab Fellow
PubMed DOI Crossref
Integrative functional analysis uncovers metabolic differences between Candida species.
Begum N, Lee S, Portlock TJ, ..., Moyes DL, Shoaie S
Commun Biol 5 (1) 1013 [2022-09-26; online 2022-09-26]
Saeed Shoaie SciLifeLab Fellow
PubMed DOI Crossref
Host-mycobiome metabolic interactions in health and disease.
Begum N, Harzandi A, Lee S, ..., Moyes DL, Shoaie S
Gut Microbes 14 (1) 2121576 [2022-09-25; online 2022-09-25]
Saeed Shoaie SciLifeLab Fellow
DOI Crossref
EukProt: A database of genome-scale predicted proteins across the diversity of eukaryotes
Richter DJ, Berney C, Strassert JFH, ..., Burki F, de Vargas C
- 2 (-) - [2022-09-20; online 2022-09-20]
Fabien Burki SciLifeLab Fellow
PubMed DOI Crossref
TET2-mutant clonal hematopoiesis and risk of gout.
Agrawal M, Niroula A, Cunin P, ..., Rao DA, Ebert BL
Blood 140 (10) 1094-1103 [2022-09-08; online 2022-06-18]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
Assessment of the neuroprotective potential of d-cycloserine and l-serine in aluminum chloride-induced experimental models of Alzheimer's disease: In vivo and in vitro studies.
Tozlu ÖÖ, Türkez H, Okkay U, ..., Hacımüftüoğlu A, Mardinoğlu A
Front Nutr 9 (-) 981889 [2022-09-08; online 2022-09-08]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Of problems and opportunities-How to treat and how to not treat crystallographic fragment screening data.
Weiss MS, Wollenhaupt J, Correy GJ, ..., Thunissen M, Pearce NM
Protein Sci. 31 (9) e4391 [2022-09-00; online 2022-08-31]
DDLS Fellow Nicholas Pearce
PubMed DOI Crossref
Microbial and human transcriptome in vaginal fluid at midgestation: Association with spontaneous preterm delivery.
Wikström T, Abrahamsson S, Bengtsson-Palme J, ..., Valentin L, Hagberg H
Clin Transl Med 12 (9) e1023 [2022-09-00; online 2022-09-15]
DDLS Fellow Johan Bengtsson-Palme
PubMed DOI Crossref
Laboratory Misidentifications Resulting from Taxonomic Changes to Bacillus cereus Group Species, 2018-2022.
Carroll LM, Matle I, Kovac J, Cheng RA, Wiedmann M
Emerg Infect Dis 28 (9) 1877-1881 [2022-09-00; online 2022-08-24]
DDLS Fellow Laura Carroll
PubMed DOI Crossref
Enhanced cytotoxicity of a novel family of ATPase inhibitors in colorectal cancer cells with high NAT2 activity.
Zhang X, Akcan E, Correia M, ..., Globisch D, Sjöblom T
Biochem. Pharmacol. 203 (-) 115184 [2022-09-00; online 2022-07-22]
Daniel Globisch SciLifeLab Fellow
PubMed DOI Crossref
Dissecting the mechanisms of environment sensitivity of smart probes for quantitative assessment of membrane properties.
Ragaller F, Andronico L, Sykora J, ..., Vattulainen I, Sezgin E
Open Biol 12 (9) 220175 [2022-09-00; online 2022-09-14]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Discovery of therapeutic agents targeting PKLR for NAFLD using drug repositioning.
Zhang C, Shi M, Kim W, ..., Boren J, Mardinoglu A
EBioMedicine 83 (-) 104214 [2022-09-00; online 2022-08-18]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Analysis of Growth Phases of Enterotoxigenic Escherichia coli Reveals a Distinct Transition Phase before Entry into Early Stationary Phase with Shifts in Tryptophan, Fucose, and Putrescine Metabolism and Degradation of Neurotransmitter Precursors.
Joffré E, Xiao X, Correia MSP, ..., Zhu B, Sjöling Å
Microbiol Spectr 10 (4) e0175521 [2022-08-31; online 2022-07-25]
Daniel Globisch SciLifeLab Fellow
PubMed DOI Crossref
TET1 regulates gene expression and repression of endogenous retroviruses independent of DNA demethylation.
Stolz P, Mantero AS, Tvardovskiy A, ..., Elsässer SJ, Bultmann S
Nucleic Acids Res. 50 (15) 8491-8511 [2022-08-26; online 2022-07-30]
SciLifeLab Fellow Simon Elsässer
PubMed DOI Crossref
Mesowestern Blot: Simultaneous Analysis of Hundreds of Submicroliter Lysates.
Zadeh CO, Huggins JR, Sarmah D, ..., Erdem C, Birtwistle MR
ACS Omega 7 (33) 28912-28923 [2022-08-23; online 2022-08-11]
Cemal Erdem DDLS Fellow
PubMed DOI Crossref
Evolutionary consequences of genomic deletions and insertions in the woolly mammoth genome.
van der Valk T, Dehasque M, Chacón-Duque JC, ..., Díez-Del-Molino D, Dalén L
iScience 25 (8) 104826 [2022-08-19; online 2022-08-01]
DDLS Fellow Tom van der Valk
PubMed DOI Crossref
The origin and evolution of open habitats in North America inferred by Bayesian deep learning models.
Andermann T, Strömberg CAE, Antonelli A, Silvestro D
Nat Commun 13 (1) 4833 [2022-08-17; online 2022-08-17]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Multi-omics personalized network analyses highlight progressive disruption of central metabolism associated with COVID-19 severity.
Ambikan AT, Yang H, Krishnan S, ..., Benfeitas R, Neogi U
Cell Syst 13 (8) 665-681.e4 [2022-08-17; online 2022-07-08]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Zeitotox: Toxicology and the Rhythms of Life.
Xiao L, Antczak P, Rüegg J, Behrendt L
Environ. Sci. Technol. 56 (16) 11100-11102 [2022-08-16; online 2022-07-27]
Lars Behrendt SciLifeLab Fellow
PubMed DOI Crossref
Microbial functional genes are driven by gradients in sediment stoichiometry, oxygen, and salinity across the Baltic benthic ecosystem.
Broman E, Izabel-Shen D, Rodríguez-Gijón A, ..., Garcia SL, Nascimento FJA
Microbiome 10 (1) 126 [2022-08-15; online 2022-08-15]
Sarahi Garcia SciLifeLab Fellow
PubMed DOI Crossref
nQMaker: Estimating Time Nonreversible Amino Acid Substitution Models.
Dang CC, Minh BQ, McShea H, ..., Vinh LS, Lanfear R
Syst. Biol. 71 (5) 1110-1123 [2022-08-10; online 2022-02-10]
DDLS Fellow Jennifer James
PubMed DOI Crossref
Local molecular and global connectomic contributions to cross-disorder cortical abnormalities.
Hansen JY, Shafiei G, Vogel JW, ..., Dagher A, Misic B
Nat Commun 13 (1) 4682 [2022-08-10; online 2022-08-10]
DDLS Fellow Jacob W Vogel
DOI Crossref
A Universal Language for Finding Mass Spectrometry Data Patterns
Jarmusch AK, Aron AT, Petras D, ..., Dorrestein PC, Wang M
- - (-) - [2022-08-07; online 2022-08-07]
Daniel Globisch SciLifeLab Fellow
PubMed DOI Crossref
Ameliorative Effects by Hexagonal Boron Nitride Nanoparticles against Beta Amyloid Induced Neurotoxicity.
Aydin N, Turkez H, Tozlu OO, ..., Di Stefano A, Mardinoglu A
Nanomaterials (Basel) 12 (15) - [2022-08-05; online 2022-08-05]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Adult Exposure to Di-N-Butyl Phthalate (DBP) Induces Persistent Effects on Testicular Cell Markers and Testosterone Biosynthesis in Mice.
Källsten L, Almamoun R, Pierozan P, ..., Martin JW, Karlsson O
Int J Mol Sci 23 (15) - [2022-08-05; online 2022-08-05]
Oskar Karlsson SciLifeLab Fellow
PubMed DOI Crossref
What can cold-induced transcriptomes of Arctic Brassicaceae tell us about the evolution of cold tolerance?
Birkeland S, Slotte T, Krag Brysting A, ..., Brochmann C, Nowak MD
Mol. Ecol. 31 (16) 4271-4285 [2022-08-00; online 2022-07-15]
SciLifeLab Fellow Tanja Slotte
PubMed DOI Crossref
The anti-inflammatory peptide Catestatin blocks chemotaxis.
Muntjewerff EM, Parv K, Mahata SK, ..., Christoffersson G, van den Bogaart G
J Leukoc Biol 112 (2) 273-278 [2022-08-00; online 2021-12-22]
Gustaf Christoffersson SciLifeLab Fellow
DOI Crossref
Recent and local diversification of Central American understorey palms
Cano Á, Stauffer FW, Andermann T, ..., Perret M, Antonelli A
Global Ecol. Biogeogr. 31 (8) 1513-1525 [2022-08-00; online 2022-05-11]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Photophysiological response of Symbiodiniaceae single cells to temperature stress.
Xiao L, Johansson S, Rughöft S, ..., Tenje M, Behrendt L
ISME J 16 (8) 2060-2064 [2022-08-00; online 2022-04-26]
Fabien Burki Lars Behrendt SciLifeLab Fellow
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Mutation accumulation opposes polymorphism: supergenes and the curious case of balanced lethals.
Berdan EL, Blanckaert A, Butlin RK, ..., Slotte T, Wielstra B
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 377 (1856) 20210199 [2022-08-00; online 2022-06-13]
SciLifeLab Fellow Tanja Slotte
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BMP4 and Gremlin 1 regulate hepatic cell senescence during clinical progression of NAFLD/NASH.
Baboota RK, Rawshani A, Bonnet L, ..., Blüher M, Smith U
Nat Metab 4 (8) 1007-1021 [2022-08-00; online 2022-08-22]
Adil Mardinoglu SciLifeLab Fellow
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Author Correction: Spatiotemporal dissection of the cell cycle with single-cell proteogenomics.
Mahdessian D, Cesnik AJ, Gnann C, ..., Sullivan DP, Lundberg E
Nature 608 (7924) E32 [2022-08-00; online 2022-08-06]
Adil Mardinoglu SciLifeLab Fellow
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Strains Associated with Two 2020 Welder Anthrax Cases in the United States Belong to Separate Lineages within Bacillus cereus sensu lato.
Carroll LM, Marston CK, Kolton CB, ..., Weiner ZP, Kovac J
Pathogens 11 (8) - [2022-07-29; online 2022-07-29]
DDLS Fellow Laura Carroll
PubMed DOI Crossref
Boron Compounds Exhibit Protective Effects against Aluminum-Induced Neurotoxicity and Genotoxicity: In Vitro and In Vivo Study.
Turkez H, Yıldırım S, Sahin E, ..., Saruhan F, Mardinoglu A
Toxics 10 (8) - [2022-07-28; online 2022-07-28]
Adil Mardinoglu SciLifeLab Fellow
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Boron Nitride Nanoparticles Loaded with a Boron-Based Hybrid as a Promising Drug Carrier System for Alzheimer's Disease Treatment.
Yıldırım ÖÇ, Arslan ME, Öner S, ..., Mardinoglu A, Turkez H
Int J Mol Sci 23 (15) - [2022-07-26; online 2022-07-26]
Adil Mardinoglu SciLifeLab Fellow
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Elman JA, Vogel JW, Bocancea DI, ..., Kremen WS, Alzheimer’s Disease Neuroimaging Initiative
Alzheimers Res Ther 14 (1) 102 [2022-07-25; online 2022-07-25]
DDLS Fellow Jacob W Vogel
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Robust and integrative Bayesian neural networks for likelihood-free parameter inference
Wrede F, Eriksson R, Jiang R, ..., Hellander A, Singh P
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Prashant Singh SciLifeLab Fellow
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Genome-scale metabolic modelling of the human gut microbiome reveals changes in the glyoxylate and dicarboxylate metabolism in metabolic disorders.
Proffitt C, Bidkhori G, Lee S, ..., Moyes DL, Shoaie S
iScience 25 (7) 104513 [2022-07-15; online 2022-06-02]
Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow
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Chi G, Liang Q, Sridhar A, ..., Covarrubias M, Dürr KL
Nat Commun 13 (1) 4087 [2022-07-15; online 2022-07-15]
Lucie Delemotte SciLifeLab Fellow
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An atlas of endogenous DNA double-strand breaks arising during human neural cell fate determination.
Ballarino R, Bouwman BAM, Agostini F, ..., Bienko M, Crosetto N
Sci Data 9 (1) 400 [2022-07-12; online 2022-07-12]
Magda Bienko SciLifeLab Fellow
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Myeloid cell-specific topoisomerase 1 inhibition using DNA origami mitigates neuroinflammation.
Zhu K, Wang Y, Sarlus H, ..., Högberg B, Harris RA
EMBO Rep. 23 (7) e54499 [2022-07-05; online 2022-05-20]
Claudia Kutter SciLifeLab Fellow
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Emanuelsson EB, Berry DB, Reitzner SM, ..., Sundberg CJ, Chapman MA
Physiol Rep 10 (14) e15398 [2022-07-00; online 2022-07-21]
Adil Mardinoglu SciLifeLab Fellow
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Detection of perineural invasion in prostate needle biopsies with deep neural networks.
Kartasalo K, Ström P, Ruusuvuori P, ..., Eklund M, Egevad L
Virchows Arch. 481 (1) 73-82 [2022-07-00; online 2022-04-21]
DDLS Fellow Kimmo Kartasalo
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Biosynthetic potential of the global ocean microbiome.
Paoli L, Ruscheweyh HJ, Forneris CC, ..., Piel J, Sunagawa S
Nature 607 (7917) 111-118 [2022-07-00; online 2022-06-22]
DDLS Fellow Laura Carroll
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Adenosine A2A receptor antagonists: from caffeine to selective non-xanthines.
Jacobson KA, Gao ZG, Matricon P, Eddy MT, Carlsson J
Br J Pharmacol 179 (14) 3496-3511 [2022-07-00; online 2020-06-19]
Jens Carlsson SciLifeLab Fellow
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The healthy female microbiome across body sites: effect of hormonal contraceptives and the menstrual cycle.
Krog MC, Hugerth LW, Fransson E, ..., Schuppe-Koistinen I, Nielsen HS
Hum. Reprod. 37 (7) 1525-1543 [2022-06-30; online 2022-05-14]
DDLS Fellow Luisa Hugerth
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Genomic Sequencing of Bacillus cereus Sensu Lato Strains Isolated from Meat and Poultry Products in South Africa Enables Inter- and Intranational Surveillance and Source Tracking.
Carroll LM, Pierneef R, Mathole A, Atanda A, Matle I
Microbiol Spectr 10 (3) e0070022 [2022-06-29; online 2022-04-27]
DDLS Fellow Laura Carroll
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Transcriptome-wide prediction of prostate cancer gene expression from histopathology images using co-expression-based convolutional neural networks.
Weitz P, Wang Y, Kartasalo K, ..., Eklund M, Rantalainen M
Bioinformatics 38 (13) 3462-3469 [2022-06-27; online 2022-05-21]
DDLS Fellow Kimmo Kartasalo
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HSFs drive transcription of distinct genes and enhancers during oxidative stress and heat shock.
Himanen SV, Puustinen MC, Da Silva AJ, Vihervaara A, Sistonen L
Nucleic Acids Res. 50 (11) 6102-6115 [2022-06-24; online 2022-06-11]
Anniina Vihervaara SciLifeLab Fellow
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The VirF21:VirF30 protein ratio is affected by temperature and impacts Shigella flexneri host cell invasion.
Skovajsová E, Colonna B, Prosseda G, Sellin ME, Di Martino ML
FEMS Microbiol. Lett. 369 (1) - [2022-06-22; online 2022-05-07]
Mikael Sellin SciLifeLab Fellow
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A scalable, open-source implementation of a large-scale mechanistic model for single cell proliferation and death signaling.
Erdem C, Mutsuddy A, Bensman EM, ..., Feltus FA, Birtwistle MR
Nat Commun 13 (1) 3555 [2022-06-21; online 2022-06-21]
Cemal Erdem DDLS Fellow
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T-cell trans-synaptic vesicles are distinct and carry greater effector content than constitutive extracellular vesicles.
Céspedes PF, Jainarayanan A, Fernández-Messina L, ..., Sánchez-Madrid F, Dustin ML
Nat Commun 13 (1) 3460 [2022-06-16; online 2022-06-16]
Erdinc Sezgin SciLifeLab Fellow
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Differential grey matter structure in women with premenstrual dysphoric disorder: evidence from brain morphometry and data-driven classification.
Dubol M, Stiernman L, Wikström J, ..., Bixo M, Comasco E
Transl Psychiatry 12 (1) 250 [2022-06-15; online 2022-06-15]
Erika Comasco SciLifeLab Fellow
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GenErode: a bioinformatics pipeline to investigate genome erosion in endangered and extinct species.
Kutschera VE, Kierczak M, van der Valk T, ..., Dalén L, Díez-Del-Molino D
BMC Bioinformatics 23 (1) 228 [2022-06-13; online 2022-06-13]
DDLS Fellow Tom van der Valk
Incidensen av levercancer ökar över hela världen
Kutter C
Onkologi i Sverige - (-) - [2022-06-10; online 2022-06-10]
Claudia Kutter SciLifeLab Fellow
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FOXO1 and FOXO3 Cooperatively Regulate Innate Lymphoid Cell Development.
Luu TT, Søndergaard JN, Peña-Pérez L, ..., Månsson R, Kadri N
Front Immunol 13 (-) 854312 [2022-06-09; online 2022-06-09]
Claudia Kutter SciLifeLab Fellow
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Probing the Link between Pancratistatin and Mitochondrial Apoptosis through Changes in the Membrane Dynamics on the Nanoscale.
Castillo SR, Rickeard BW, DiPasquale M, ..., Kelley EG, Marquardt D
Mol. Pharm. 19 (6) 1839-1852 [2022-06-06; online 2022-05-13]
DDLS Fellow Milka Doktorova
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Subtype-specific responses of hKv7.4 and hKv7.5 channels to polyunsaturated fatty acids reveal an unconventional modulatory site and mechanism.
Frampton DJA, Choudhury K, Nikesjö J, Delemotte L, Liin SI
Elife 11 (-) - [2022-06-01; online 2022-06-01]
Lucie Delemotte SciLifeLab Fellow
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The relative role of plasticity and demographic history in Capsella bursa-pastoris: a common garden experiment in Asia and Europe.
Cornille A, Tiret M, Salcedo A, ..., Wright SI, Lascoux M
AoB Plants 14 (3) plac011 [2022-06-00; online 2022-04-02]
Pascal Milesi SciLifeLab Fellow
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The limits of human microRNA annotation have been met.
Fromm B, Zhong X, Tarbier M, Friedländer MR, Hackenberg M
RNA 28 (6) 781-785 [2022-06-00; online 2022-03-02]
Marc Friedländer SciLifeLab Fellow
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TGFβ selects for pro-stemness over pro-invasive phenotypes during cancer cell epithelial-mesenchymal transition.
Tsubakihara Y, Ohata Y, Okita Y, ..., Heldin CH, Moustakas A
Mol Oncol 16 (12) 2330-2354 [2022-06-00; online 2022-04-10]
Mikael Sellin SciLifeLab Fellow
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Rapid in situ identification of biological specimens via DNA amplicon sequencing using miniaturized laboratory equipment.
Pomerantz A, Sahlin K, Vasiljevic N, ..., Ogden R, Prost S
Nat Protoc 17 (6) 1415-1443 [2022-06-00; online 2022-04-11]
Kristoffer Sahlin SciLifeLab Fellow
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Potato genomes pave the way to crop improvement.
Gutiérrez-Valencia J, Slotte T
Nature 606 (7914) 472-473 [2022-06-00; online 2022-06-09]
SciLifeLab Fellow Tanja Slotte
PubMed DOI Crossref
Polycomb repressive complex 2 shields naïve human pluripotent cells from trophectoderm differentiation.
Kumar B, Navarro C, Winblad N, ..., Lanner F, Elsässer SJ
Nat. Cell Biol. 24 (6) 845-857 [2022-06-00; online 2022-05-30]
SciLifeLab Fellow Simon Elsässer
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OPUSeq simplifies detection of low-frequency DNA variants and uncovers fragmentase-associated artifacts.
Alekseenko A, Wang J, Barrett D, Pelechano V
NAR Genomics and Bioinformatics 4 (2) lqac048 [2022-06-00; online 2022-06-27]
SciLifeLab Fellow Vicent Pelechano
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Mechanism of mitoribosomal small subunit biogenesis and preinitiation.
Itoh Y, Khawaja A, Laptev I, ..., Rorbach J, Amunts A
Nature 606 (7914) 603-608 [2022-06-00; online 2022-06-08]
Alexey Amunts SciLifeLab Fellow
PubMed DOI Crossref
Machine Learning Analysis Reveals Biomarkers for the Detection of Neurological Diseases.
Lam S, Arif M, Song X, Uhlén M, Mardinoglu A
Front Mol Neurosci 15 (-) 889728 [2022-05-31; online 2022-05-31]
Adil Mardinoglu SciLifeLab Fellow
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Inhibition of Respiratory Syncytial Virus Infection by Small Non-Coding RNA Fragments.
Pålsson SA, Sekar V, Kutter C, Friedländer MR, Spetz AL
Int J Mol Sci 23 (11) - [2022-05-26; online 2022-05-26]
Claudia Kutter SciLifeLab Fellow
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Simultaneous visualization of flow fields and oxygen concentrations to unravel transport and metabolic processes in biological systems.
Ahmerkamp S, Jalaluddin FM, Cui Y, ..., Koren K, Behrendt L
Cell Rep Methods 2 (5) 100216 [2022-05-23; online 2022-05-23]
Lars Behrendt SciLifeLab Fellow
DOI Crossref
Hyperthermia-Induced In Situ Drug Amorphization by Superparamagnetic Nanoparticles in Oral Dosage Forms
Ansari SR, Hempel NJ, Asad S, ..., Löbmann K, Teleki A
ACS Appl Mater Interfaces 14 (19) 21978-21988 [2022-05-18; online 2022-04-22]
Alexandra Teleki SciLifeLab Fellow
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The vaginal microbiome and the risk of preterm birth: a systematic review and network meta-analysis.
Gudnadottir U, Debelius JW, Du J, ..., Fransson E, Brusselaers N
Sci Rep 12 (1) 7926 [2022-05-13; online 2022-05-13]
DDLS Fellow Luisa Hugerth
PubMed DOI Crossref
Impact of Genome Reduction in Microsporidia.
Jespersen N, Monrroy L, Barandun J
Exp Suppl 114 (-) 1-42 [2022-05-12; online 2022-05-12]
Jonas Barandun SciLifeLab Fellow
PubMed DOI Crossref
Patatin-like phospholipase CapV in Escherichia coli - morphological and physiological effects of one amino acid substitution.
Li F, Cao L, Bähre H, ..., Rohde M, Römling U
NPJ Biofilms Microbiomes 8 (1) 39 [2022-05-11; online 2022-05-11]
Kristina Jonas SciLifeLab Fellow
PubMed DOI Crossref
Lipid-Protein Interactions in Plasma Membrane Organization and Function.
Sych T, Levental KR, Sezgin E
Annu Rev Biophys 51 (-) 135-156 [2022-05-09; online 2022-01-04]
Erdinc Sezgin SciLifeLab Fellow
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Maternal prenatal depressive symptoms and toddler behavior: an umbilical cord blood epigenome-wide association study.
Kallak TK, Fransson E, Bränn E, ..., Lyle R, Skalkidou A
Transl Psychiatry 12 (1) 186 [2022-05-05; online 2022-05-05]
Erika Comasco SciLifeLab Fellow
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Genetics of smoking and risk of clonal hematopoiesis.
Levin MG, Nakao T, Zekavat SM, ..., Damrauer SM, Natarajan P
Sci Rep 12 (1) 7248 [2022-05-04; online 2022-05-04]
Abhishek Niroula DDLS Fellow
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The right bug in the right place: opportunities for bacterial vaginosis treatment.
Wu S, Hugerth LW, Schuppe-Koistinen I, Du J
NPJ Biofilms Microbiomes 8 (1) 34 [2022-05-02; online 2022-05-02]
DDLS Fellow Luisa Hugerth
PubMed DOI Crossref
Subtypes of Alzheimer's disease: questions, controversy, and meaning.
Vogel JW, Hansson O
Trends Neurosci 45 (5) 342-345 [2022-05-00; online 2022-02-25]
DDLS Fellow Jacob W Vogel
DOI Crossref
Scalable federated machine learning with FEDn
Ekmefjord M, Ait-Mlouk A, Alawadi S, ..., Toor S, Hellander A
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Prashant Singh SciLifeLab Fellow
PubMed DOI Crossref
Glucagonlike Peptide-1 Receptor Imaging in Individuals with Type 2 Diabetes.
Eriksson O, Velikyan I, Haack T, ..., Tillner J, Wagner M
Journal of nuclear medicine : official publication, Society of Nuclear Medicine 63 (5) 794-800 [2022-05-00; online 2021-09-09]
Olof Eriksson SciLifeLab Fellow
DOI Crossref
Direct Observation of Na,K‐ATPase Oligomers in The Plasma Membrane of Living Cells by FRET‐FCS
Nordahl L, Wennmalm S, Jönsson J, ..., Akkuratov EE, Brismar H
The FASEB Journal 36 (S1) - [2022-05-00; online 2022-05-13]
SciLifeLab Fellow Simon Elsässer
PubMed DOI Crossref
Clonal Hematopoiesis and CKD Progression.
Niroula A, Belizaire R
J. Am. Soc. Nephrol. 33 (5) 878-879 [2022-05-00; online 2022-04-06]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
A motile doublet form of Salmonella Typhimurium diversifies target search behavior at the epithelial surface.
Ek V, Fattinger SA, Florbrant A, ..., Eriksson J, Sellin ME
Mol. Microbiol. 117 (5) 1156-1172 [2022-05-00; online 2022-04-12]
Mikael Sellin SciLifeLab Fellow
PubMed DOI Crossref
Understanding immune signaling using advanced imaging techniques.
Brameshuber M, Klotzsch E, Ponjavic A, Sezgin E
Biochem. Soc. Trans. 50 (2) 853-866 [2022-04-29; online 2022-03-29]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Global Estimation and Mapping of the Conservation Status of Tree Species Using Artificial Intelligence.
Silva SV, Andermann T, Zizka A, Kozlowski G, Silvestro D
Front Plant Sci 13 (-) 839792 [2022-04-29; online 2022-04-29]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Cancer cells use self-inflicted DNA breaks to evade growth limits imposed by genotoxic stress.
Larsen BD, Benada J, Yung PYK, ..., Bartek J, Sørensen CS
Science (New York, N.Y.) 376 (6592) 476-483 [2022-04-29; online 2022-04-28]
SciLifeLab Fellow Simon Elsässer
PubMed DOI Crossref
Recent Progress and Future Direction for the Application of Multiomics Data in Clinical Liver Transplantation.
Liu Z, Xu J, Que S, ..., Mardinoglu A, Zheng S
J Clin Transl Hepatol 10 (2) 363-373 [2022-04-28; online 2022-01-04]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Multiple Cortical to Striatal Accumulation Trajectories of β-Amyloid: Do All Roads Lead to Rome?
Vogel JW, Tosun D
Neurology 98 (17) 695-696 [2022-04-26; online 2022-03-25]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
A DNA molecular printer capable of programmable positioning and patterning in two dimensions.
Benson E, Marzo RC, Bath J, Turberfield AJ
Sci Robot 7 (65) eabn5459 [2022-04-20; online 2022-04-20]
Erik Benson SciLifeLab Fellow
DOI Crossref
The Role of Bio‐based Excipients in the Formulation of Lipophilic Nutraceuticals
Teleki A, Tsekou C, Connolly A
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Alexandra Teleki SciLifeLab Fellow
PubMed DOI Crossref
Estimating Alpha, Beta, and Gamma Diversity Through Deep Learning.
Andermann T, Antonelli A, Barrett RL, Silvestro D
Front Plant Sci 13 (-) 839407 [2022-04-19; online 2022-04-19]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Associations of prenatal exposure to mixtures of organochlorine pesticides and smoking and drinking behaviors in adolescence.
Dickerson AS, Deng Z, Ransome Y, Factor-Litvak P, Karlsson O
Environ. Res. 206 (-) 112431 [2022-04-15; online 2021-11-27]
Oskar Karlsson SciLifeLab Fellow
PubMed DOI Crossref
Anthraquinone derivatives as ADP-competitive inhibitors of liver pyruvate kinase.
Nain-Perez A, Foller Füchtbauer A, Håversen L, ..., Uhlen M, Grøtli M
Eur J Med Chem 234 (-) 114270 [2022-04-15; online 2022-03-08]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Differentiating amyloid beta spread in autosomal dominant and sporadic Alzheimer's disease.
Levitis E, Vogel JW, Funck T, ..., Dominantly Inherited Alzheimer Network , Alzheimer’s Disease Neuroimaging Initiative
Brain Commun 4 (3) fcac085 [2022-04-13; online 2022-04-13]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Irritable bowel syndrome and microbiome; Switching from conventional diagnosis and therapies to personalized interventions.
Ghaffari P, Shoaie S, Nielsen LK
J Transl Med 20 (1) 173 [2022-04-11; online 2022-04-11]
Saeed Shoaie SciLifeLab Fellow
PubMed DOI Crossref
Experiences From Developing Software for Large X-Ray Crystallography-Driven Protein-Ligand Studies.
Pearce NM, Skyner R, Krojer T
Front Mol Biosci 9 (-) 861491 [2022-04-11; online 2022-04-11]
DDLS Fellow Nicholas Pearce
PubMed DOI Crossref
Grey matter correlates of affective and somatic symptoms of premenstrual dysphoric disorder.
Dubol M, Wikström J, Lanzenberger R, ..., Sundström-Poromaa I, Comasco E
Sci Rep 12 (1) 5996 [2022-04-09; online 2022-04-09]
Erika Comasco SciLifeLab Fellow
PubMed DOI Crossref
PET-CT imaging of pulmonary inflammation using [68Ga]Ga-DOTA-TATE.
Puuvuori E, Liggieri F, Velikyan I, ..., Perchiazzi G, Eriksson O
EJNMMI Res 12 (1) 19 [2022-04-08; online 2022-04-08]
Olof Eriksson SciLifeLab Fellow
PubMed DOI Crossref
Mendelian randomization supports bidirectional causality between telomere length and clonal hematopoiesis of indeterminate potential.
Nakao T, Bick AG, Taub MA, ..., NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium , Natarajan P
Sci Adv 8 (14) eabl6579 [2022-04-08; online 2022-04-06]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
Structural basis for PoxtA-mediated resistance to phenicol and oxazolidinone antibiotics.
Crowe-McAuliffe C, Murina V, Turnbull KJ, ..., Wilson DN, Hauryliuk V
Nat Commun 13 (1) 1860 [2022-04-06; online 2022-04-06]
SciLifeLab Fellow Vicent Pelechano
PubMed DOI Crossref
Uniting diversity to create a more inclusive academic environment.
Delemotte L, Garcia SL, Rodríguez-Gijón A, Sezgin E, Vihervaara A
J. Cell. Sci. 135 (7) - [2022-04-01; online 2022-04-12]
Anniina Vihervaara Erdinc Sezgin Lucie Delemotte Sarahi Garcia SciLifeLab Fellow
PubMed DOI Crossref
Giant plasma membrane vesicles to study plasma membrane structure and dynamics.
Sezgin E
Biochim Biophys Acta Biomembr 1864 (4) 183857 [2022-04-01; online 2022-01-04]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Target sequence capture of Barnadesioideae (Compositae) demonstrates the utility of low coverage loci in phylogenomic analyses.
Ferreira PL, Batista R, Andermann T, ..., Bacon CD, Antonelli A
Mol. Phylogenet. Evol. 169 (-) 107432 [2022-04-00; online 2022-02-04]
DDLS Fellow Tobias Andermann
PubMed DOI Crossref
Prediction of drug candidates for clear cell renal cell carcinoma using a systems biology-based drug repositioning approach.
Li X, Shong K, Kim W, ..., Zhang C, Mardinoglu A
EBioMedicine 78 (-) 103963 [2022-04-00; online 2022-03-25]
Adil Mardinoglu Saeed Shoaie SciLifeLab Fellow
PubMed DOI Crossref
Multiomics Analysis Reveals the Impact of Microbiota on Host Metabolism in Hepatic Steatosis.
Zeybel M, Arif M, Li X, ..., Borén J, Mardinoglu A
Adv Sci (Weinh) 9 (11) e2104373 [2022-04-00; online 2022-02-07]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Long-term SARS-CoV-2-specific and cross-reactive cellular immune responses correlate with humoral responses, disease severity, and symptomatology.
Laurén I, Havervall S, Ng H, ..., Thålin C, Mangsbo S
Immun Inflamm Dis 10 (4) e595 [2022-04-00; online 2022-03-30]
Gustaf Christoffersson SciLifeLab Fellow
PubMed DOI Crossref
Integrative study of diet-induced mouse models of NAFLD identifies PPARα as a sexually dimorphic drug target.
Smati S, Polizzi A, Fougerat A, ..., Gourdy P, Guillou H
Gut 71 (4) 807-821 [2022-04-00; online 2021-04-26]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
IgE cross-linking induces activation of human and mouse mast cell progenitors.
Méndez-Enríquez E, Salomonsson M, Eriksson J, ..., Sellin ME, Hallgren J
J. Allergy Clin. Immunol. 149 (4) 1458-1463 [2022-04-00; online 2021-09-04]
Mikael Sellin SciLifeLab Fellow
PubMed DOI Crossref
Genetically encoded photo-switchable molecular sensors for optoacoustic and super-resolution imaging.
Mishra K, Fuenzalida-Werner JP, Pennacchietti F, ..., Ntziachristos V, Stiel AC
Nat. Biotechnol. 40 (4) 598-605 [2022-04-00; online 2021-11-29]
Ilaria Testa SciLifeLab Fellow
PubMed DOI Crossref
Brain charts for the human lifespan.
Bethlehem RAI, Seidlitz J, White SR, ..., Bullmore ET, Alexander-Bloch AF
Nature 604 (7906) 525-533 [2022-04-00; online 2022-04-06]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Associations between Listeria monocytogenes genomic characteristics and adhesion to polystyrene at 8 °C.
Mahoney DBJ, Falardeau J, Hingston P, ..., Jang SS, Wang S
Food Microbiol 102 (-) 103915 [2022-04-00; online 2021-09-23]
DDLS Fellow Laura Carroll
PubMed DOI Crossref
Acute sleep loss alters circulating fibroblast growth factor 21 levels in humans: A randomised crossover trial.
Mateus Brandão LE, Espes D, Westholm JO, ..., Benedict C, Cedernaes J
J Sleep Res 31 (2) e13472 [2022-04-00; online 2021-09-02]
Daniel Espes SciLifeLab Fellow
PubMed DOI Crossref
The microbiome in reproductive health: protocol for a systems biology approach using a prospective, observational study design.
Krog MC, Madsen ME, Bliddal S, ..., Schuppe-Koistinen I, Nielsen HS
Hum Reprod Open 2022 (2) hoac015 [2022-03-23; online 2022-03-23]
DDLS Fellow Luisa Hugerth
PubMed DOI Crossref
Molecular Genetics and Cytotoxic Responses to Titanium Diboride and Zinc Borate Nanoparticles on Cultured Human Primary Alveolar Epithelial Cells.
Türkez H, Arslan ME, Tatar A, ..., Tatar A, Mardinoglu A
Materials (Basel) 15 (7) - [2022-03-22; online 2022-03-22]
Adil Mardinoglu SciLifeLab Fellow
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A Gene Co-Expression Network-Based Drug Repositioning Approach Identifies Candidates for Treatment of Hepatocellular Carcinoma.
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Mol. Genet. Genomics 297 (2) 463-484 [2022-03-00; online 2022-02-20]
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Stroke 53 (3) 788-797 [2022-03-00; online 2021-11-08]
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J Biol Chem 298 (3) 101682 [2022-03-00; online 2022-02-03]
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Importance of Binding Site Hydration and Flexibility Revealed When Optimizing a Macrocyclic Inhibitor of the Keap1-Nrf2 Protein-Protein Interaction.
Begnini F, Geschwindner S, Johansson P, ..., Schiesser S, Kihlberg J
J Med Chem 65 (4) 3473-3517 [2022-02-24; online 2022-02-02]
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J Psychiatry Neurosci 47 (1) E67-E76 [2022-02-23; online 2022-02-23]
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Ultralarge Virtual Screening Identifies SARS-CoV-2 Main Protease Inhibitors with Broad-Spectrum Activity against Coronaviruses.
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Journal of the American Chemical Society 144 (7) 2905-2920 [2022-02-23; online 2022-02-10]
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mSystems 7 (1) e0000422 [2022-02-22; online 2022-02-08]
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Commun Biol 5 (1) 129 [2022-02-11; online 2022-02-11]
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Wikman A, Sacher J, Bixo M, ..., Comasco E, Sundström Poromaa I
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Sci Data 9 (1) 47 [2022-02-10; online 2022-02-10]
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SM-Omics is an automated platform for high-throughput spatial multi-omics.
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Nat Commun 13 (1) 795 [2022-02-10; online 2022-02-10]
Sanja Vickovic SciLifeLab Fellow
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Neophytou C, Heer K, Milesi P, ..., Rellstab C, Gugerli F
Tree Genet Genomes 18 (2) 12 [2022-02-09; online 2022-02-09]
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Elife 11 (-) - [2022-02-08; online 2022-02-08]
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Methods in molecular biology (Clifton, N.J.) 2418 (-) 313-343 [2022-02-05; online 2022-02-05]
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ZFP207 sustains pluripotency by coordinating OCT4 stability, alternative splicing and RNA export.
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MBio 13 (1) e0002222 [2022-02-01; online 2022-02-01]
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Ilaria Testa SciLifeLab Fellow
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JAMA Neurol 79 (2) 149-158 [2022-02-01; online 2021-12-21]
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Structural amyloid plaque polymorphism is associated with distinct lipid accumulations revealed by trapped ion mobility mass spectrometry imaging.
Michno W, Wehrli PM, Koutarapu S, ..., Hopf C, Hanrieder J
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J Hepatol 76 (2) 332-342 [2022-02-00; online 2021-09-24]
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RNA gradients: Shapers of 3D genome architecture.
Bouwman BAM, Crosetto N, Bienko M
Curr Opin Cell Biol 74 (-) 7-12 [2022-02-00; online 2022-01-05]
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Diversity and Distributions 28 (2) 227-241 [2022-02-00; online 2021-12-16]
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Marklund E, Mao G, Yuan J, ..., Deindl S, Elf J
Science (New York, N.Y.) 375 (6579) 442-445 [2022-01-28; online 2022-01-27]
Emil Marklund SciLifeLab Fellow Sebastian Deindl
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Pellon A, Begum N, Sadeghi Nasab SD, ..., Shoaie S, Moyes DL
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Irisin-A Pancreatic Islet Hormone.
Norman D, Drott CJ, Carlsson PO, Espes D
Biomedicines 10 (2) - [2022-01-25; online 2022-01-25]
Daniel Espes SciLifeLab Fellow
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Genome-wide annotation of protein-coding genes in pig.
Karlsson M, Sjöstedt E, Oksvold P, ..., Luo Y, Uhlen M
BMC Biol. 20 (1) 25 [2022-01-25; online 2022-01-25]
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BioRssay: an R package for analyses of bioassays and probit graphs.
Karunarathne P, Pocquet N, Labbé P, Milesi P
Parasit Vectors 15 (1) 35 [2022-01-24; online 2022-01-24]
Pascal Milesi SciLifeLab Fellow
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Association of clonal hematopoiesis with chronic obstructive pulmonary disease.
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Blood 139 (3) 357-368 [2022-01-20; online 2021-12-03]
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CCT3-LINC00326 axis regulates hepatocarcinogenic lipid metabolism.
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Gut 71 (10) 2081-2092 [2022-01-12; online 2022-01-12]
Claudia Kutter SciLifeLab Fellow
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Functional dissection of inherited non-coding variation influencing multiple myeloma risk.
Ajore R, Niroula A, Pertesi M, ..., Houlston R, Nilsson B
Nat Commun 13 (1) 151 [2022-01-10; online 2022-01-10]
Abhishek Niroula DDLS Fellow
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A bispecific monomeric nanobody induces spike trimer dimers and neutralizes SARS-CoV-2 in vivo.
Hanke L, Das H, Sheward DJ, ..., Murrell B, McInerney GM
Nat Commun 13 (1) 155 [2022-01-10; online 2022-01-10]
Erdinc Sezgin SciLifeLab Fellow
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MirGeneDB 2.1: toward a complete sampling of all major animal phyla.
Fromm B, Høye E, Domanska D, ..., Friedländer MR, Peterson KJ
Nucleic Acids Res. 50 (D1) D204-D210 [2022-01-07; online 2021-12-02]
Marc Friedländer SciLifeLab Fellow
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TRP channels: branching out into the fungal kingdom.
Hellmich UA, Delemotte L
Structure 30 (1) 2-4 [2022-01-06; online 2022-01-08]
Lucie Delemotte SciLifeLab Fellow
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A Genomic Perspective Across Earth's Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy.
Rodríguez-Gijón A, Nuy JK, Mehrshad M, ..., Woyke T, Garcia SL
Front Microbiol 12 (-) 761869 [2022-01-05; online 2022-01-05]
Sarahi Garcia SciLifeLab Fellow
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Effects on weight loss and glycemic control with SAR441255, a potent unimolecular peptide GLP-1/GIP/GCG receptor triagonist.
Bossart M, Wagner M, Elvert R, ..., Nitsche A, Konkar A
Cell Metab. 34 (1) 59-74.e10 [2022-01-04; online 2021-12-20]
Olof Eriksson SciLifeLab Fellow
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An open state of a voltage-gated sodium channel involving a π-helix and conserved pore-facing asparagine.
Choudhury K, Kasimova MA, McComas S, Howard RJ, Delemotte L
Biophys. J. 121 (1) 11-22 [2022-01-04; online 2021-12-08]
Lucie Delemotte SciLifeLab Fellow
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Spatial analysis of histology in 3D: quantification and visualization of organ and tumor level tissue environment.
Ruusuvuori P, Valkonen M, Kartasalo K, ..., Nykter M, Latonen L
Heliyon 8 (1) e08762 [2022-01-00; online 2022-01-14]
DDLS Fellow Kimmo Kartasalo
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Revisiting sORFs: overcoming challenges to identify and characterize functional microproteins.
Schlesinger D, Elsässer SJ
FEBS J. 289 (1) 53-74 [2022-01-00; online 2021-02-24]
SciLifeLab Fellow Simon Elsässer
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Putative regulation of macrophage-mediated inflammation by catestatin.
Muntjewerff EM, Christoffersson G, Mahata SK, van den Bogaart G
Trends Immunol. 43 (1) 41-50 [2022-01-00; online 2021-11-27]
Gustaf Christoffersson SciLifeLab Fellow
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Improvement of the performance of anticancer peptides using a drug repositioning pipeline.
Mohammadi E, Tahmoorespur M, Benfeitas R, ..., Mardinoglu A, Sekhavati MH
Biotechnol J 17 (1) e2100417 [2022-01-00; online 2021-11-14]
Adil Mardinoglu SciLifeLab Fellow
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Identification of dynamic mass-action biochemical reaction networks using sparse Bayesian methods.
Jiang R, Singh P, Wrede F, Hellander A, Petzold L
PLoS Comput Biol 18 (1) e1009830 [2022-01-00; online 2022-01-31]
Prashant Singh SciLifeLab Fellow
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Distinct transcription kinetics of pluripotent cell states.
Shao R, Kumar B, Lidschreiber K, ..., Cramer P, Elsässer SJ
Mol Syst Biol 18 (1) e10407 [2022-01-00; online 2022-01-13]
SciLifeLab Fellow Simon Elsässer
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Cell type-specific analysis by single-cell profiling identifies a stable mammalian tRNA-mRNA interface and increased translation efficiency in neurons.
Gao W, Gallardo-Dodd CJ, Kutter C
Genome Res 32 (1) 97-110 [2022-01-00; online 2021-12-02]
Claudia Kutter SciLifeLab Fellow
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Artificial intelligence for diagnosis and Gleason grading of prostate cancer: the PANDA challenge.
Bulten W, Kartasalo K, Chen PC, ..., Eklund M, PANDA challenge consortium
Nat. Med. 28 (1) 154-163 [2022-01-00; online 2022-01-13]
DDLS Fellow Kimmo Kartasalo
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Enhanced Sampling Methods for Molecular Dynamics Simulations [Article v1.0]
Hénin J, Lelièvre T, Shirts MR, Valsson O, Delemotte L
LiveCoMS 4 (1) - [2022-00-00; online 2022-00-00]
Lucie Delemotte SciLifeLab Fellow
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Cholesterol stiffening of lipid membranes and drug interactions: Insights from neutron spin echo and deuterium NMR spectroscopy
Gupta S, Doole FT, Kumarage T, ..., Ashkar R, Brown MF
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DDLS Fellow Milka Doktorova
SciLifeLab Data Centre
Publications 9.5.1