Publications 2023

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172 publications

DOI Crossref
Bayesian polynomial neural networks and polynomial neural ordinary differential equations
Fronk C, Yun J, Singh P, Petzold L
arxiv preprint - (-) - [2023-12-01; online 2023-08-25]
Prashant Singh SciLifeLab Fellow
Adaptive Parameter-Free Robust Learning using Latent Bernoulli Variables
Karakulev A, Zachariah D, Singh P
arxiv preprint - (-) - [2023-12-01; online 2023-12-04]
Prashant Singh SciLifeLab Fellow
PubMed DOI Crossref
Nutritional control of bacterial DNA replication.
Hallgren J, Jonas K
Curr Opin Microbiol 77 (-) 102403 [2023-11-29; online 2023-11-29]
Kristina Jonas SciLifeLab Fellow
PubMed DOI Crossref
Gasdermin D is the only Gasdermin that provides protection against acute Salmonella gut infection in mice.
Fattinger SA, Maurer L, Geiser P, ..., Sellin ME, Hardt WD
Proc. Natl. Acad. Sci. U.S.A. 120 (48) e2315503120 [2023-11-28; online 2023-11-21]
Mikael Sellin SciLifeLab Fellow
PubMed DOI Crossref
Phosphate starvation decouples cell differentiation from DNA replication control in the dimorphic bacterium Caulobacter crescentus.
Hallgren J, Koonce K, Felletti M, ..., Turco E, Jonas K
PLoS Genet 19 (11) e1010882 [2023-11-27; online 2023-11-27]
Kristina Jonas SciLifeLab Fellow
PubMed DOI Crossref
The heat shock protein LarA activates the Lon protease in response to proteotoxic stress.
Omnus DJ, Fink MJ, Kallazhi A, ..., Landreh M, Jonas K
Nat Commun 14 (1) 7636 [2023-11-22; online 2023-11-22]
Kristina Jonas SciLifeLab Fellow
DOI Crossref
A conserved ribosomal protein has entirely dissimilar structures in different organisms
Schierholz L, Brown CR, Helena-Bueno K, ..., Barandun J, Melnikov SV
Molecular Biology and Evolution - (-) - [2023-11-21; online 2023-11-21]
Jonas Barandun SciLifeLab Fellow
PubMed DOI Crossref
Spatial host-microbiome sequencing reveals niches in the mouse gut.
Lötstedt B, Stražar M, Xavier R, Regev A, Vickovic S
Nat. Biotechnol. - (-) - [2023-11-20; online 2023-11-20]
Sanja Vickovic SciLifeLab Fellow
PubMed DOI Crossref
Dual stop codon suppression in mammalian cells with genomically integrated genetic code expansion machinery.
Meineke B, Heimgärtner J, Caridha R, ..., Landreh M, Elsässer SJ
Cell Rep Methods 3 (11) 100626 [2023-11-20; online 2023-11-06]
SciLifeLab Fellow Simon Elsässer
PubMed DOI Crossref
CCR5 promoter region polymorphisms in systemic lupus erythematosus.
Schauren JDS, de Oliveira AH, Consiglio CR, ..., Ellwanger JH, Chies JAB
Int J Immunogenet - (-) - [2023-11-20; online 2023-11-20]
Camila Consiglio DDLS Fellow
PubMed DOI Crossref
Multi-omics network analysis on samples from sequential biopsies reveals vital role of proliferation arrest for Macrosteatosis related graft failure in rats after liver transplantation.
Liu Z, Wang W, Li X, ..., Mardinoglu A, Zheng S
Genomics 115 (6) 110748 [2023-11-19; online 2023-11-19]
Adil Mardinoglu SciLifeLab Fellow
DOI Crossref
Genomic analyses elucidate the causes and consequences of breakdown of distyly inLinum trigynum
Gutiérrez-Valencia J, Zervakis PI, Postel Z, ..., Arroyo J, Slotte T
- - (-) - [2023-11-17; online 2023-11-17]
SciLifeLab Fellow Tanja Slotte
PubMed DOI Crossref
Synergistic stabilization of emulsion gel by nanoparticles and surfactant enables 3D printing of lipid-rich solid oral dosage forms.
Johannesson J, Pathare MM, Johansson M, Bergström CAS, Teleki A
J Colloid Interface Sci 650 (Pt B) 1253-1264 [2023-11-15; online 2023-07-10]
Alexandra Teleki SciLifeLab Fellow
PubMed DOI Crossref
Novel styryl-thiazole hybrids as potential anti-Alzheimer's agents.
Gouleni N, Di Rienzo A, Yılmaz A, ..., Vassiliou S, Cacciatore I
RSC Med Chem 14 (11) 2315-2326 [2023-11-15; online 2023-09-21]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
The association of the RSC remodeler complex with chromatin is influenced by the prefoldin-like Bud27 and determines nucleosome positioning and polyadenylation sites usage in Saccharomyces cerevisiae.
Cuevas-Bermúdez A, Martínez-Fernández V, Garrido-Godino AI, ..., Pelechano V, Francisco N
Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms - (-) 194995 [2023-11-13; online 2023-11-13]
SciLifeLab Fellow Vicent Pelechano
PubMed DOI Crossref
Inhibition of CDK12 elevates cancer cell dependence on P-TEFb by stimulation of RNA polymerase II pause release.
Wang Z, Himanen SV, Haikala HM, ..., Vihervaara A, Barborič M
Nucleic Acids Res. 51 (20) 10970-10991 [2023-11-10; online 2023-10-09]
Anniina Vihervaara SciLifeLab Fellow
DOI Crossref
Core genes driving climate adaptation in plants
Yeaman S, Whiting J, Booker T, ..., Wright S, Zhou L
- - (-) - [2023-11-10; online 2023-11-10]
Pascal Milesi SciLifeLab Fellow
PubMed DOI Crossref
Anticancer Potential of Novel Cinnamoyl Derivatives against U87MG and SHSY-5Y Cell Lines.
Gouleni N, Di Rienzo A, Oner S, ..., Vassiliou S, Cacciatore I
Anticancer Agents Med Chem - (-) - [2023-11-10; online 2023-11-10]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Non-invasive imaging of sympathetic innervation of the pancreas in individuals with type 2 diabetes.
Vyakaranam AR, Mahamed MM, Hellman P, ..., Christoffersson G, Sundin A
Diabetologia - (-) - [2023-11-07; online 2023-11-07]
Daniel Espes Gustaf Christoffersson SciLifeLab Fellow
PubMed DOI Crossref
NIPMAP: niche-phenotype mapping of multiplex histology data by community ecology.
El Marrahi A, Lipreri F, Kang Z, ..., Alber D, Hausser J
Nat Commun 14 (1) 7182 [2023-11-07; online 2023-11-07]
Jean Hausser SciLifeLab Fellow
PubMed DOI Crossref
Regulation of the general stress response sigma factor σT by Lon-mediated proteolysis.
Akar R, Fink MJ, Omnus DJ, Jonas K
J. Bacteriol. 205 (11) e0022823 [2023-11-06; online 2023-11-06]
Kristina Jonas SciLifeLab Fellow
PubMed DOI Crossref
PRO-IP-seq tracks molecular modifications of engaged Pol II complexes at nucleotide resolution.
Vihervaara A, Versluis P, Himanen SV, Lis JT
Nat Commun 14 (1) 7039 [2023-11-03; online 2023-11-03]
Anniina Vihervaara SciLifeLab Fellow
PubMed DOI Crossref
Between but Not Within-Species Variation in the Distribution of Fitness Effects.
James J, Kastally C, Budde KB, ..., Lascoux M, GenTree Consortium
Mol. Biol. Evol. 40 (11) - [2023-11-03; online 2023-10-14]
Pascal Milesi SciLifeLab Fellow
PubMed DOI Crossref
SRCAP mutations drive clonal hematopoiesis through epigenetic and DNA repair dysregulation.
Chen CW, Zhang L, Dutta R, ..., Sperling AS, Goodell MA
Cell Stem Cell 30 (11) 1503-1519.e8 [2023-11-02; online 2023-10-19]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
Open MoA: revealing the mechanism of action (MoA) based on network topology and hierarchy.
Liao X, Ozcan M, Shi M, ..., Mardinoglu A, Zhang C
Bioinformatics 39 (11) - [2023-11-01; online 2023-11-06]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Identification of nutritional biomarkers through highly sensitive and chemoselective metabolomics.
Lin W, Mellinghaus K, Rodriguez-Mateos A, Globisch D
Food Chem 425 (-) 136481 [2023-11-01; online 2023-06-01]
Daniel Globisch SciLifeLab Fellow
PubMed DOI Crossref
Functional and molecular profiling of hematopoietic stem cells during regeneration.
Rydström A, Grahn THM, Niroula A, ..., Larsson J, Karlsson S
Exp. Hematol. 127 (-) 40-51 [2023-11-00; online 2023-09-04]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
A comprehensive framework for detecting copy number variants from single nucleotide polymorphism data: 'rCNV', a versatile r package for paralogue and CNV detection.
Karunarathne P, Zhou Q, Schliep K, Milesi P
Mol Ecol Resour 23 (8) 1772-1789 [2023-11-00; online 2023-07-29]
Pascal Milesi SciLifeLab Fellow
DOI Crossref
aMeta: an accurate and memory-efficient ancient metagenomic profiling workflow
Pochon Z, Bergfeldt N, Kırdök E, ..., Unneberg P, Oskolkov N
Genome Biol. 24 (1) - [2023-10-23; online 2023-10-23]
DDLS Fellow Tom van der Valk
PubMed DOI Crossref
Three-dimensional Co-culture Model for Live Imaging of Pancreatic Islets, Immune Cells, and Neurons in Agarose Gel.
Muntjewerff EM, Josyula VS, Christoffersson G
Bio Protoc 13 (20) e4852 [2023-10-20; online 2023-10-20]
Gustaf Christoffersson SciLifeLab Fellow
PubMed DOI Crossref
PACMan: A software package for automated single-cell chlorophyll fluorometry.
Pontén O, Xiao L, Kutter J, ..., Wählby C, Behrendt L
Cytometry A - (-) - [2023-10-20; online 2023-10-20]
Lars Behrendt SciLifeLab Fellow
PubMed DOI Crossref
Characterization of an in vitro steatosis model simulating activated de novo lipogenesis in MAFLD patients.
Kim W, Li M, Jin H, ..., Zhang C, Mardinoglu A
iScience 26 (10) 107727 [2023-10-20; online 2023-08-25]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Coinhibition of topoisomerase 1 and BRD4-mediated pause release selectively kills pancreatic cancer via readthrough transcription.
Cameron DP, Grosser J, Ladigan S, ..., Hahn SA, Baranello L
Sci Adv 9 (41) eadg5109 [2023-10-13; online 2023-10-13]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Discovery and characterisation of quinazolines and 8-Azaquinazolines as NLRP3 agonists with oral bioavailability in mice.
O' Donovan DH, Baker D, Ciotta G, ..., Tang H, Valge-Archer V
Bioorg. Med. Chem. Lett. 96 (-) 129518 [2023-10-12; online 2023-10-12]
SciLifeLab Fellow Yumeng Mao
DOI Crossref
Recurrent hybridization and gene flow shaped Norway and Siberian spruce evolutionary history over multiple glacial cycles
Zhou Q, Karunarathne P, Andersson-Li L, ..., Lascoux M, Milesi P
- - (-) - [2023-10-06; online 2023-10-06]
Pascal Milesi SciLifeLab Fellow
PubMed DOI Crossref
Functional imaging studies of acute administration of classic psychedelics, ketamine, and MDMA: Methodological limitations and convergent results.
Linguiti S, Vogel JW, Sydnor VJ, ..., Dworkin RH, Satterthwaite TD
Neurosci Biobehav Rev 154 (-) 105421 [2023-10-05; online 2023-10-05]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Long-Term Effects of Perinatal Exposure to a Glyphosate-Based Herbicide on Melatonin Levels and Oxidative Brain Damage in Adult Male Rats.
Cattani D, Pierozan P, Zamoner A, Brittebo E, Karlsson O
Antioxidants (Basel) 12 (10) - [2023-10-03; online 2023-10-03]
Oskar Karlsson SciLifeLab Fellow
PubMed DOI Crossref
Connectome-based modelling of neurodegenerative diseases: towards precision medicine and mechanistic insight.
Vogel JW, Corriveau-Lecavalier N, Franzmeier N, ..., Jones DT, Ewers M
Nat Rev Neurosci 24 (10) 620-639 [2023-10-00; online 2023-08-24]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Detection of transcriptome-wide microRNA-target interactions in single cells with agoTRIBE.
Sekar V, Mármol-Sánchez E, Kalogeropoulos P, ..., Biryukova I, Friedländer MR
Nat. Biotechnol. - (-) - [2023-09-21; online 2023-09-21]
Marc Friedländer SciLifeLab Fellow
PubMed DOI Crossref
Genetic modification of inflammation- and clonal hematopoiesis-associated cardiovascular risk.
Yu Z, Fidler TP, Ruan Y, ..., Tall AR, Natarajan P
J. Clin. Invest. 133 (18) - [2023-09-15; online 2023-09-15]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
Systems-level temporal immune-metabolic profile in Crimean-Congo hemorrhagic fever virus infection.
Ambikan AT, Elaldi N, Svensson-Akusjärvi S, ..., Mirazimi A, Neogi U
Proc. Natl. Acad. Sci. U.S.A. 120 (37) e2304722120 [2023-09-12; online 2023-09-05]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
A novel kleptoplastidic symbiosis revealed in the marine centrohelid Meringosphaera with evidence of genetic integration.
Sørensen MES, Zlatogursky VV, Onuţ-Brännström I, ..., Foster RA, Burki F
Curr. Biol. 33 (17) 3571-3584.e6 [2023-09-11; online 2023-08-02]
Fabien Burki SciLifeLab Fellow
DOI Crossref
Estrogen receptor activation remodelsTEAD1gene expression to alleviate nonalcoholic fatty liver disease
Sommerauer C, Gallardo-Dodd CJ, Savva C, ..., Williams C, Kutter C
- - (-) - [2023-09-08; online 2023-09-08]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Digital assay for rapid electronic quantification of clinical pathogens using DNA nanoballs.
Tayyab M, Barrett D, van Riel G, ..., Javanmard M, Pelechano V
Sci Adv 9 (36) eadi4997 [2023-09-08; online 2023-09-06]
SciLifeLab Fellow Vicent Pelechano
PubMed DOI Crossref
EGb 761 reduces Ca2+ influx and apoptosis after pentylenetetrazole treatment in a neuroblastoma cell line.
Ovey IS, Ozsimsek A, Velioglu HA, ..., Mardinoglu A, Yulug B
Front. Cell. Neurosci. 17 (-) 1195303 [2023-09-07; online 2023-09-07]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Systematic transcriptional analysis of human cell lines for gene expression landscape and tumor representation.
Jin H, Zhang C, Zwahlen M, ..., Uhlén M, Mardinoglu A
Nat Commun 14 (1) 5417 [2023-09-05; online 2023-09-05]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Structure-based virtual screening discovers potent and selective adenosine A1 receptor antagonists.
Matricon P, Nguyen AT, Vo DD, ..., May LT, Carlsson J
Eur J Med Chem 257 (-) 115419 [2023-09-05; online 2023-05-01]
Jens Carlsson SciLifeLab Fellow
PubMed DOI Crossref
Sex differences in distribution and identity of aromatase gene expressing cells in the young adult rat brain.
Immenschuh J, Thalhammer SB, Sundström-Poromaa I, ..., Dumas S, Comasco E
Biol Sex Differ 14 (1) 54 [2023-09-01; online 2023-09-01]
Erika Comasco SciLifeLab Fellow
PubMed DOI Crossref
Vesicular glutamate transporter 2 expression in the ventral tegmental area of outbred male rats following exposure to nicotine and alcohol.
Vrettou M, Thalhammer SB, Svensson AL, ..., Nylander I, Comasco E
Drug Alcohol Depend Rep 8 (-) 100180 [2023-09-00; online 2023-07-13]
Erika Comasco SciLifeLab Fellow
PubMed DOI Crossref
Real-life data of hypoglycemic events in children and adolescents with type 1 diabetes.
Hill H, Klaar P, Espes D
BMJ Open Diabetes Res Care 11 (5) - [2023-09-00; online 2023-09-23]
Daniel Espes SciLifeLab Fellow
PubMed DOI Crossref
Pubertal sexual development and endpoints for disrupted spermatogenesis in the model Xenopus tropicalis.
Svanholm S, Roza M, Marini D, ..., Karlsson O, Berg C
Reprod. Toxicol. 120 (-) 108435 [2023-09-00; online 2023-07-01]
Oskar Karlsson SciLifeLab Fellow
PubMed DOI Crossref
Infection with COVID-19 is no longer a public emergency: But what about degenerative dementia?
Yulug B, Ayyıldız B, Ayyıldız S, ..., Velioglu HA, Mardinoglu A
J Med Virol 95 (9) e29072 [2023-09-00; online 2023-09-19]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Development of microsatellite markers for sister species Linum suffruticosum and Linum tenuifolium in their overlapping ranges.
Olmedo-Vicente E, Désamoré A, Simón-Porcar VI, Slotte T, Arroyo J
Mol. Biol. Rep. 50 (9) 7927-7933 [2023-09-00; online 2023-07-17]
SciLifeLab Fellow Tanja Slotte
PubMed DOI Crossref
Tissue pleiotropic effect of biotin and prebiotic supplementation in established obesity.
Voland L, Yuan M, Lecoutre S, ..., Soula H, Clément K
Am. J. Physiol. Endocrinol. Metab. - (-) - [2023-08-30; online 2023-08-30]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Exposure of volunteers to microgravity by dry immersion bed over 21 days results in gene expression changes and adaptation of T cells.
Gallardo-Dodd CJ, Oertlin C, Record J, ..., Ponomarev SA, Westerberg LS
Sci Adv 9 (34) eadg1610 [2023-08-25; online 2023-08-25]
Claudia Kutter SciLifeLab Fellow
PubMed DOI Crossref
Immobilized Enzymes on Magnetic Beads for Separate Mass Spectrometric Investigation of Human Phase II Metabolite Classes.
Tsiara I, Riemer A, Correia MSP, Rodriguez-Mateos A, Globisch D
Anal. Chem. 95 (33) 12565-12571 [2023-08-22; online 2023-08-08]
Daniel Globisch SciLifeLab Fellow
PubMed DOI Crossref
The acute effect of different NAD+ precursors included in the combined metabolic activators.
Li X, Yang H, Jin H, ..., Borén J, Mardinoglu A
Free Radic. Biol. Med. 205 (-) 77-89 [2023-08-20; online 2023-06-02]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Epithelial inflammasomes, gasdermins, and mucosal inflammation - Lessons from Salmonella and Shigella infected mice.
Gül E, Fattinger SA, Sellin ME, Hardt WD
Semin Immunol 70 (-) 101812 [2023-08-08; online 2023-08-08]
Mikael Sellin SciLifeLab Fellow
PubMed DOI Crossref
Altered gut microbiota community structure and correlated immune system changes in dibutyl phthalate exposed mice.
Almamoun R, Pierozan P, Manoharan L, Karlsson O
Ecotoxicology and Environmental Safety 262 (-) 115321 [2023-08-05; online 2023-08-05]
Oskar Karlsson SciLifeLab Fellow
PubMed DOI Crossref
Longitudinal metabolomics analysis reveals the acute effect of cysteine and NAC included in the combined metabolic activators.
Yang H, Li X, Jin H, ..., Borén J, Mardinoglu A
Free Radic. Biol. Med. 204 (-) 347-358 [2023-08-01; online 2023-05-26]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Umbilical cord-derived mesenchymal stromal cells preserve endogenous insulin production in type 1 diabetes: a Phase I/II randomised double-blind placebo-controlled trial.
Carlsson PO, Espes D, Sisay S, ..., Smith CIE, Svahn MG
Diabetologia 66 (8) 1431-1441 [2023-08-00; online 2023-05-24]
Daniel Espes SciLifeLab Fellow
PubMed DOI Crossref
Historical RNA expression profiles from the extinct Tasmanian tiger.
Mármol-Sánchez E, Fromm B, Oskolkov N, ..., Dalén L, Friedländer MR
Genome Res 33 (8) 1299-1316 [2023-08-00; online 2023-07-18]
Marc Friedländer SciLifeLab Fellow
DOI Crossref
A global baseline for qPCR-determined antimicrobial resistance gene prevalence across environments
Abramova A, Berendonk TU, Bengtsson-Palme J
Environ Int 178 (-) 108084 [2023-08-00; online 2023-08-00]
DDLS Fellow Johan Bengtsson-Palme
PubMed DOI Crossref
Naltrexone blocks alcohol-induced effects on kappa-opioid receptors in the plasma membrane.
Terenius L, Oasa S, Sezgin E, ..., Martin-Fardon R, Vukojevic V
Res Sq - (-) - [2023-07-21; online 2023-07-21]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Development of an Effective Functional Lipid Anchor for Membranes (FLAME) for the Bioorthogonal Modification of the Lipid Bilayer of Mesenchymal Stromal Cells.
Sternstein C, Böhm TM, Fink J, ..., Ebert R, Seibel J
Bioconjug. Chem. 34 (7) 1221-1233 [2023-07-19; online 2023-06-16]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Next generation pan-cancer blood proteome profiling using proximity extension assay.
Álvez MB, Edfors F, von Feilitzen K, ..., Fagerberg L, Uhlén M
Nat Commun 14 (1) 4308 [2023-07-18; online 2023-07-18]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Nanopore sequencing of PCR products enables multicopy gene family reconstruction.
Namias A, Sahlin K, Makoundou P, ..., Belkhir K, Weill M
Comput Struct Biotechnol J 21 (-) 3656-3664 [2023-07-16; online 2023-07-16]
Kristoffer Sahlin SciLifeLab Fellow
PubMed DOI Crossref
A data-driven study of Alzheimer's disease related amyloid and tau pathology progression.
Aksman LM, Oxtoby NP, Scelsi MA, ..., Altmann A, ADNI
Brain - (-) - [2023-07-11; online 2023-07-11]
DDLS Fellow Jacob W Vogel
PubMed DOI Crossref
Establishing mammalian GLUT kinetics and lipid composition influences in a reconstituted-liposome system.
Suades A, Qureshi A, McComas SE, ..., Carlsson J, Drew D
Nat Commun 14 (1) 4070 [2023-07-10; online 2023-07-10]
Jens Carlsson SciLifeLab Fellow
PubMed DOI Crossref
MOBILE pipeline enables identification of context-specific networks and regulatory mechanisms.
Erdem C, Gross SM, Heiser LM, Birtwistle MR
Nat Commun 14 (1) 3991 [2023-07-06; online 2023-07-06]
Cemal Erdem DDLS Fellow
PubMed DOI Crossref
Cardiomyocyte-specific PCSK9 deficiency compromises mitochondrial bioenergetics and heart function.
Laudette M, Lindbom M, Arif M, ..., Levin MC, Borén J
Cardiovasc Res 119 (7) 1537-1552 [2023-07-04; online 2023-03-08]
Adil Mardinoglu SciLifeLab Fellow
PubMed DOI Crossref
Birth Weight Is Associated With Clonal Hematopoiesis of Indeterminate Potential and Cardiovascular Outcomes in Adulthood.
Schuermans A, Nakao T, Ruan Y, ..., Natarajan P, Honigberg MC
J Am Heart Assoc 12 (13) e030220 [2023-07-04; online 2023-06-22]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
Sex and gender in infection and immunity: addressing the bottlenecks from basic science to public health and clinical applications.
Pasin C, Consiglio CR, Huisman JS, ..., Kouyos RD, Bonhoeffer S
R Soc Open Sci 10 (7) 221628 [2023-07-00; online 2023-07-05]
Camila Consiglio DDLS Fellow
PubMed DOI Crossref
How Hi-C ignited the era of 3D genome biology.
Bienko M
Nat. Rev. Genet. 24 (7) 418 [2023-07-00; online 2023-02-03]
Magda Bienko
PubMed DOI Crossref
HLA Class I Genotype Is Associated with Relapse Risk after Allogeneic Stem Cell Transplantation for NPM1-Mutated Acute Myeloid Leukemia.
Narayan R, Niroula A, Wang T, ..., Spellman S, Lee SJ
Transplant Cell Ther 29 (7) 452.e1-452.e11 [2023-07-00; online 2023-03-29]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
Entropy predicts sensitivity of pseudorandom seeds.
Maier BD, Sahlin K
Genome Res 33 (7) 1162-1174 [2023-07-00; online 2023-05-22]
Kristoffer Sahlin SciLifeLab Fellow
PubMed DOI Crossref
Efficient mapping of accurate long reads in minimizer space with mapquik.
Ekim B, Sahlin K, Medvedev P, Berger B, Chikhi R
Genome Res 33 (7) 1188-1197 [2023-07-00; online 2023-06-30]
Kristoffer Sahlin SciLifeLab Fellow
PubMed DOI Crossref
isONform: reference-free transcriptome reconstruction from Oxford Nanopore data.
Petri AJ, Sahlin K
Bioinformatics 39 (39 Suppl 1) i222-i231 [2023-06-30; online 2023-06-30]
Kristoffer Sahlin SciLifeLab Fellow
PubMed DOI Crossref
Persistent immunosuppressive effects of dibutyl phthalate exposure in adult male mice.
Pierozan P, Källsten L, Theodoropoulou E, Almamoun R, Karlsson O
Sci. Total Environ. 878 (-) 162741 [2023-06-20; online 2023-03-11]
Oskar Karlsson SciLifeLab Fellow
PubMed DOI Crossref
Host Phylogeny Structures the Gut Bacterial Community Within Galerucella Leaf Beetles.
An Y, Braga MP, Garcia SL, Grudzinska-Sterno M, Hambäck PA
Microb. Ecol. - (-) - [2023-06-14; online 2023-06-14]
Sarahi Garcia SciLifeLab Fellow
PubMed DOI Crossref
High-throughput measurement of the content and properties of nano-sized bioparticles with single-particle profiler.
Sych T, Schlegel J, Barriga HMG, ..., Stevens MM, Sezgin E
Nat. Biotechnol. - (-) - [2023-06-12; online 2023-06-12]
Erdinc Sezgin SciLifeLab Fellow
PubMed DOI Crossref
Generation of Amber Suppression Cell Lines Using CRISPR-Cas9.
Meineke B, Elsässer SJ
Methods in molecular biology (Clifton, N.J.) 2676 (-) 169-180 [2023-06-06; online 2023-06-06]
SciLifeLab Fellow Simon Elsässer
PubMed DOI Crossref
Contrasting outcomes of genome reduction in mikrocytids and microsporidians.
Žárský V, Karnkowska A, Boscaro V, ..., Burki F, Keeling PJ
BMC Biol. 21 (1) 137 [2023-06-06; online 2023-06-06]
Fabien Burki SciLifeLab Fellow
DOI Crossref
Ribosome clustering and surface layer reorganization in the microsporidian host-invasion apparatus
Sharma H, Jespersen N, Ehrenbolger K, Carlson LA, Barandun J
- - (-) - [2023-06-04; online 2023-06-04]
Jonas Barandun SciLifeLab Fellow
PubMed DOI Crossref
Obesity-induced inflammation exacerbates clonal hematopoiesis.
Pasupuleti SK, Ramdas B, Burns SS, ..., Natarajan P, Kapur R
J. Clin. Invest. 133 (11) - [2023-06-01; online 2023-06-01]
Abhishek Niroula DDLS Fellow
PubMed DOI Crossref
Barcoded Consortium Infections: A Scalable, Internally Controlled Method to Study Host Cell Binding and Invasion by Pathogenic Bacteria.
Di Martino ML, Sellin ME
Methods in molecular biology (Clifton, N.J.) 2674 (-) 295-311 [2023-06-01; online 2023-06-01]
Mikael Sellin SciLifeLab Fellow
PubMed DOI Crossref
A survey of mapping algorithms in the long-reads era.
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Adil Mardinoglu SciLifeLab Fellow
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Jun SH, Toosi H, Mold J, ..., Roth A, Lagergren J
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Camilla Engblom SciLifeLab Fellow
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Not1 and Not4 inversely determine mRNA solubility that sets the dynamics of co-translational events.
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Genome Biol. 24 (1) 30 [2023-02-20; online 2023-02-20]
SciLifeLab Fellow Vicent Pelechano
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Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation.
Li B, Zeis P, Zhang Y, ..., Steinmetz LM, Pelechano V
Nat Commun 14 (1) 910 [2023-02-17; online 2023-02-17]
SciLifeLab Fellow Vicent Pelechano
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Choudhury K, Howard RJ, Delemotte L
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Pascal Milesi SciLifeLab Fellow
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[18F]MK-7246 for Positron Emission Tomography Imaging of the Beta-Cell Surface Marker GPR44.
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Pharmaceutics 15 (2) - [2023-02-02; online 2023-02-02]
Olof Eriksson SciLifeLab Fellow
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Combined metabolic activators improve metabolic functions in the animal models of neurodegenerative diseases.
Turkez H, Altay O, Yildirim S, ..., Uhlén M, Mardinoglu A
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Adil Mardinoglu SciLifeLab Fellow
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High-content analysis shows synergistic effects of low perfluorooctanoic acid (PFOS) and perfluorooctane sulfonic acid (PFOA) mixture concentrations on human breast epithelial cell carcinogenesis.
Pierozan P, Kosnik M, Karlsson O
Environ Int 172 (-) 107746 [2023-02-00; online 2023-01-12]
Oskar Karlsson SciLifeLab Fellow
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Diversity and enrichment of breeding material for resilience in European forests
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Forest Ecology and Management 530 (-) 120748 [2023-02-00; online 2023-02-00]
Pascal Milesi SciLifeLab Fellow
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Hsu J, Fatuzzo N, Weng N, ..., Nasca C, Khosla C
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SciLifeLab Fellow Wojciech Michno
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Curr. Opin. Genet. Dev. 78 (-) 102020 [2023-02-00; online 2023-01-05]
Magda Bienko
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Editorial: Effects of hormonal contraceptives on the brain.
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Front Endocrinol (Lausanne) 14 (-) 1129203 [2023-01-31; online 2023-01-31]
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Transl Neurodegener 12 (1) 4 [2023-01-26; online 2023-01-26]
Adil Mardinoglu SciLifeLab Fellow
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Ellagic Acid and Its Metabolites as Potent and Selective Allosteric Inhibitors of Liver Pyruvate Kinase.
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Nutrients 15 (3) - [2023-01-22; online 2023-01-22]
Adil Mardinoglu SciLifeLab Fellow
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TP53-mediated clonal hematopoiesis confers increased risk for incident atherosclerotic disease.
Zekavat SM, Viana-Huete V, Matesanz N, ..., Fuster JJ, Klarin D
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Abhishek Niroula DDLS Fellow
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Synchronous effective population size changes and genetic stability of forest trees through glacial cycles
Milesi P, Kastally C, Dauphin B, ..., Pyhäjärvi T, None
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Pascal Milesi SciLifeLab Fellow
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Serendipitous Identification of a Covalent Activator of Liver Pyruvate Kinase.
Battisti UM, Gao C, Nilsson O, ..., Mardinoglu A, Grøtli M
Chembiochem 24 (1) e202200339 [2023-01-03; online 2022-11-09]
Adil Mardinoglu SciLifeLab Fellow
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In Vivo Visualization and Quantification of Neutrophil Elastase in Lungs of COVID-19 Patients: A First-in-Humans PET Study with 11C-NES.
Antoni G, Lubberink M, Sörensen J, ..., Skorup P, Lipcsey M
Journal of nuclear medicine : official publication, Society of Nuclear Medicine 64 (1) 145-148 [2023-01-00; online 2022-06-09]
Olof Eriksson SciLifeLab Fellow
SciLifeLab Data Centre
Publications 9.5.0