Publications 2023

Title Authors Journal Published Online
Bayesian polynomial neural networks and polynomial neural ordinary differential equations Fronk C, Yun J, Singh P, Petzold L arxiv preprint - (-) - 2023-12-01 2023-08-25
Adaptive Parameter-Free Robust Learning using Latent Bernoulli Variables Karakulev A, Zachariah D, Singh P arxiv preprint - (-) - 2023-12-01 2023-12-04
Nutritional control of bacterial DNA replication. Hallgren J, Jonas K Curr Opin Microbiol 77 (-) 102403 2023-11-29 2023-11-29
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 2023-11-21
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 2023-11-27
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 2023-11-22
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 2023-11-21
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 2023-11-20
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 2023-11-06
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 2023-11-20
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 2023-11-19
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 2023-11-17
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 2023-07-10
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 2023-09-21
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 2023-11-13
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 2023-10-09
Core genes driving climate adaptation in plants Yeaman S, Whiting J, Booker T, ..., Wright S, Zhou L - - (-) - 2023-11-10 2023-11-10
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 2023-11-10
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 2023-11-07
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 2023-11-07
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 2023-11-06
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 2023-11-03
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 2023-10-14
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 2023-10-19
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 2023-11-06
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 2023-06-01
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 2023-09-04
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 2023-07-29
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 2023-10-23
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 2023-10-20
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 2023-10-20
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 2023-08-25
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 2023-10-13
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 2023-10-12
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 2023-10-06
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 2023-10-05
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 2023-10-03
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 2023-08-24
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 2023-09-21
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 2023-09-15
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 2023-09-05
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 2023-08-02
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 2023-09-08
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 2023-09-06
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 2023-09-07
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 2023-09-05
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 2023-05-01
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 2023-09-01
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 2023-07-13
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 2023-09-23
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 2023-07-01
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 2023-09-19
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 2023-07-17
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 2023-08-30
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 2023-08-25
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 2023-08-08
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 2023-06-02
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 2023-08-08
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 2023-08-05
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 2023-05-26
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 2023-05-24
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 2023-07-18
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 2023-08-00
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 2023-07-21
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 2023-06-16
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 2023-07-18
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 2023-07-16
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 2023-07-11
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 2023-07-10
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 2023-07-06
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 2023-03-08
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 2023-06-22
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 2023-07-05
How Hi-C ignited the era of 3D genome biology. Bienko M Nat. Rev. Genet. 24 (7) 418 2023-07-00 2023-02-03
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 2023-03-29
Entropy predicts sensitivity of pseudorandom seeds. Maier BD, Sahlin K Genome Res 33 (7) 1162-1174 2023-07-00 2023-05-22
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 2023-06-30
isONform: reference-free transcriptome reconstruction from Oxford Nanopore data. Petri AJ, Sahlin K Bioinformatics 39 (39 Suppl 1) i222-i231 2023-06-30 2023-06-30
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 2023-03-11
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 2023-06-14
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 2023-06-12
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 2023-06-06
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 2023-06-06
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 2023-06-04
Obesity-induced inflammation exacerbates clonal hematopoiesis. Pasupuleti SK, Ramdas B, Burns SS, ..., Natarajan P, Kapur R J. Clin. Invest. 133 (11) - 2023-06-01 2023-06-01
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 2023-06-01
A survey of mapping algorithms in the long-reads era. Sahlin K, Baudeau T, Cazaux B, Marchet C Genome Biol. 24 (1) 133 2023-06-01 2023-06-01
Intraluminal neutrophils limit epithelium damage by reducing pathogen assault on intestinal epithelial cells during Salmonella gut infection. Gül E, Enz U, Maurer L, ..., Sellin ME, Hardt WD PLoS Pathog 19 (6) e1011235 2023-06-00 2023-06-29
Classification of Hypoglycemic Events in Type 1 Diabetes Using Machine Learning Algorithms. Cederblad L, Eklund G, Vedal A, ..., Carlsson PO, Espes D Diabetes Ther 14 (6) 953-965 2023-06-00 2023-04-13
Chemical safety and the exposome Karlsson O Emerging Contaminants 9 (2) 100225 2023-06-00 2023-06-00
Efficient Resource Scheduling for Distributed Infrastructures using Negotiation Capabilities Chu J, Singh PS, Toor S IEEE CLOUD 2023 - (-) - 2023-05-29 -
Chemoselective bicyclobutane-based mass spectrometric detection of biological thiols uncovers human and bacterial metabolites. Kaur A, Lin W, Dovhalyuk V, ..., Sellin ME, Globisch D Chem Sci 14 (20) 5291-5301 2023-05-24 2023-04-06
Clonal Hematopoiesis of Indeterminate Potential Predicts Adverse Outcomes in Patients With Atherosclerotic Cardiovascular Disease. Gumuser ED, Schuermans A, Cho SMJ, ..., Natarajan P, Honigberg MC J. Am. Coll. Cardiol. 81 (20) 1996-2009 2023-05-23 2023-05-18
Design of Drug Efficacy Guided by Free Energy Simulations of the β2 -Adrenoceptor. Panel N, Vo DD, Kahlous NA, ..., Gmeiner P, Carlsson J Angew. Chem. Int. Ed. Engl. 62 (22) e202218959 2023-05-22 2023-04-20
Atlas of mRNA translation and decay for bacteria. Huch S, Nersisyan L, Ropat M, ..., Engstrand L, Pelechano V Nat. Microbiol - (-) - 2023-05-22 2023-05-22
Drug repositioning targeting glutaminase reveals drug candidates for the treatment of Alzheimer's disease patients. Bayraktar A, Li X, Kim W, ..., Shoaie S, Mardinoglu A J Transl Med 21 (1) 332 2023-05-20 2023-05-20
Development and Characterization of Novel Selective, Non-Basic Dopamine D2 Receptor Antagonists for the Treatment of Schizophrenia. Stępnicki P, Wośko S, Bartyzel A, ..., Castro M, Kaczor AA Molecules 28 (10) - 2023-05-20 2023-05-20
Membranes in focus. Sezgin E, Levental I Biophys. J. - (-) - 2023-05-19 2023-05-19
Striking allelic diversity despite structural homogeneity of ace-1 duplications in Anopheles mosquitoes Claret JL, Di-Liegro M, Namias A, ..., Milesi P, Labbé P - - (-) - 2023-05-12 2023-05-12
The oxDNA Coarse-Grained Model as a Tool to Simulate DNA Origami. Doye JPK, Fowler H, Prešern D, ..., Poppleton E, Snodin BEK Methods in molecular biology (Clifton, N.J.) 2639 (-) 93-112 2023-05-11 2023-05-11
Sensitive quantification of short-chain fatty acids combined with global metabolomics in microbiome cultures. Lin W, García FR, Norin EL, ..., Du J, Globisch D Chem. Commun. (Camb.) 59 (39) 5843-5846 2023-05-11 2023-05-11
A Multiparametric and High-Throughput Platform for Host-Virus Binding Screens. Schlegel J, Porebski B, Andronico L, ..., Fernandez-Capetillo O, Sezgin E Nano Lett. 23 (9) 3701-3707 2023-05-10 2023-03-09
Data-driven neuropathological staging and subtyping of TDP-43 proteinopathies. Young AL, Vogel JW, Robinson JL, ..., Lee EB, Hansson O Brain - (-) - 2023-05-08 2023-05-08
Comparison of Group-Level and Individualized Brain Regions for Measuring Change in Longitudinal Tau Positron Emission Tomography in Alzheimer Disease. Leuzy A, Binette AP, Vogel JW, ..., Hansson O, Alzheimer’s Disease Neuroimaging Initiative JAMA Neurol - (-) - 2023-05-08 2023-05-08
A practical approach to curate clonal hematopoiesis of indeterminate potential in human genetic data sets. Vlasschaert C, Mack T, Heimlich JB, ..., Jaiswal S, Bick AG Blood 141 (18) 2214-2223 2023-05-04 2023-01-19
Nontarget Analysis of Polluted Surface Waters in Bangladesh Using Open Science Workflows. Bonnefille B, Karlsson O, Rian MB, ..., Islam MS, Martin JW Environ. Sci. Technol. 57 (17) 6808-6824 2023-05-02 2023-04-21
Adrenomedullin promotes interneuron migration in a dual human model for hypoxic interneuronopathy of prematurity Michno WP, Puno A, Li L, ..., Willsey AJ, Pasca AM - - (-) - 2023-05-01 2023-05-01
Trophozoite fitness dictates the intestinal epithelial cell response to Giardia intestinalis infection. Grüttner J, van Rijn JM, Geiser P, ..., Sellin ME, Svärd SG PLoS Pathog 19 (5) e1011372 2023-05-00 2023-05-04
Revisiting the role of serine metabolism in hepatic lipogenesis. Yang H, Zhang C, Turkez H, ..., Boren J, Mardinoglu A Nat Metab 5 (5) 760-761 2023-05-00 2023-05-11
Prediction of risk for myeloid malignancy in clonal hematopoiesis. Weeks LD, Niroula A, Neuberg D, ..., Natarajan P, Ebert BL NEJM Evid 2 (5) - 2023-05-00 2023-04-25
New Pharmacological Approaches to the Management of Premenstrual Dysphoric Disorder. Sundström-Poromaa I, Comasco E CNS Drugs 37 (5) 371-379 2023-05-00 2023-05-12
Intrinsic lipolysis rate for systematic design of lipid-based formulations Jacobsen AC, Kabedev A, Sinko PD, ..., Bergström CAS, Teleki A Drug Deliv. and Transl. Res. 13 (5) 1288-1304 2023-05-00 2022-10-08
Discovery of drug targets and therapeutic agents based on drug repositioning to treat lung adenocarcinoma. Graves OK, Kim W, Özcan M, ..., Mardinoglu A, Li X Biomed. Pharmacother. 161 (-) 114486 2023-05-00 2023-03-10
Acute nicotine exposure blocks aromatase in the limbic brain of healthy women: A [11C]cetrozole PET study. Dubol M, Immenschuh J, Jonasson M, ..., Sundström-Poromaa I, Comasco E Compr Psychiatry 123 (-) 152381 2023-05-00 2023-03-05
Exploration of Novel Urolithin C Derivatives as Non-Competitive Inhibitors of Liver Pyruvate Kinase. Battisti UM, Monjas L, Akladios F, ..., Mardinoğlu A, Grøtli M Pharmaceuticals (Basel, Switzerland) 16 (5) - 2023-04-28 2023-04-28
Reconfigurable self-assembled DNA devices. Benson E, Bath J Sci Robot 8 (77) eadh8148 2023-04-26 2023-04-26
Normalization of hepatic ChREBP activity does not protect against liver disease progression in a mouse model for Glycogen Storage Disease type Ia. Rutten MGS, Lei Y, Hoogerland JH, ..., van de Sluis B, Oosterveer MH Cancer Metab 11 (1) 5 2023-04-21 2023-04-21
Time-Lapse Imaging of Inflammasome-Dependent Cell Death and Extrusion in Enteroid-Derived Intestinal Epithelial Monolayers. Geiser P, van Rijn JM, Sellin ME Methods in molecular biology (Clifton, N.J.) 2641 (-) 203-221 2023-04-19 2023-04-19
Development of top-down cortical propagations in youth. Pines A, Keller AS, Larsen B, ..., Fair DA, Satterthwaite TD Neuron 111 (8) 1316-1330.e5 2023-04-19 2023-02-17
Monitoring beta cell survival after intrahepatic islet transplantation using dynamic exendin PET imaging: a proof-of-concept study in individuals with type 1 diabetes. Jansen TJP, Buitinga M, Boss M, ..., de Koning EJP, Gotthardt M Diabetes - (-) - 2023-04-17 2023-04-17
Microscopy-based phenotypic monitoring of MDA-MB-231 spheroids allows the evaluation of phenotype-directed therapy. Mahmoud L, Cougnoux A, Bekiari C, ..., Gsell L, Hausser J Exp. Cell Res. 425 (2) 113527 2023-04-15 2023-03-06
Emotion-induced brain activation across the menstrual cycle in individuals with premenstrual dysphoric disorder and associations to serum levels of progesterone-derived neurosteroids. Stiernman L, Dubol M, Comasco E, ..., Johansson M, Bixo M Transl Psychiatry 13 (1) 124 2023-04-14 2023-04-14
CRISPR-Cas9-mediated genome engineering exaggerates genomic deletion at 10q23.31 including the<i>PTEN</i>gene locus mimicking cancer profiles Geng K, Merino LG, Veiga RG, ..., Brinkman EK, Kutter C - - (-) - 2023-04-06 2023-04-06
Mucosal and Plasma Metabolomes in New-onset Paediatric Inflammatory Bowel Disease: Correlations with Disease Characteristics and Plasma Inflammation Protein Markers. Nyström N, Prast-Nielsen S, Correia M, ..., Schuppe-Koistinen I, Halfvarson J J Crohns Colitis 17 (3) 418-432 2023-04-03 2022-10-12
IL-1 receptor-associated kinase-3 acts as an immune checkpoint in myeloid cells to limit cancer immunotherapy. Tunalı G, Rúbies Bedós M, Nagarajan D, ..., Papakyriacou I, Mao Y J. Clin. Invest. 133 (7) - 2023-04-03 2023-04-03
Epithelial and microbial determinants of colonic drug distribution. Hammar R, Sellin ME, Artursson P Eur J Pharm Sci 183 (-) 106389 2023-04-01 2023-01-20
Voices of the new generation: normalizing career choices outside academia. Sezgin E Nat. Rev. Mol. Cell Biol. 24 (4) 237 2023-04-00 2023-01-20
The liver kinase B1 supports mammary epithelial morphogenesis by inhibiting critical factors that mediate epithelial-mesenchymal transition. Tzavlaki K, Ohata Y, Morén A, ..., Heldin CH, Moustakas A J. Cell. Physiol. 238 (4) 790-812 2023-04-00 2023-02-15
Gray matter hypoperfusion is a late pathological event in the course of Alzheimer's disease. Ahmadi K, Pereira JB, Berron D, ..., Mutsaerts HJ, Hansson O J. Cereb. Blood Flow Metab. 43 (4) 565-580 2023-04-00 2022-11-22
Dynamic antagonism between key repressive pathways maintains the placental epigenome. Weigert R, Hetzel S, Bailly N, ..., Smith ZD, Meissner A Nat. Cell Biol. 25 (4) 579-591 2023-04-00 2023-04-06
Deep mutational scan of a drug efflux pump reveals its structure-function landscape. Meier G, Thavarasah S, Ehrenbolger K, ..., Barandun J, Seeger MA Nat. Chem. Biol. 19 (4) 440-450 2023-04-00 2022-11-28
Clonal haematopoiesis and risk of chronic liver disease. Wong WJ, Emdin C, Bick AG, ..., Ebert BL, Natarajan P Nature 616 (7958) 747-754 2023-04-00 2023-04-12
A frame-shift mutation in COMTD1 is associated with impaired pheomelanin pigmentation in chicken. Bi H, Tranell J, Harper DC, ..., Globisch D, Andersson L PLoS Genet 19 (4) e1010724 2023-04-00 2023-04-17
Do lipids tune B cell signaling? Urbančič I, Eggeling C, Sezgin E Nat. Chem. Biol. - (-) - 2023-03-30 2023-03-30
Diverticulosis is not associated with altered gut microbiota nor is it predictive of future diverticulitis: a population-based colonoscopy study. Alexandersson BT, Hugerth LW, Hedin C, ..., Andreasson A, Schmidt PT Scand. J. Gastroenterol. 58 (10) 1131-1138 2023-03-29 2023-03-29
Linking prokaryotic genome size variation to metabolic potential and environment. Rodríguez-Gijón A, Buck M, Andersson AF, ..., Nascimento FJA, Garcia SL ISME Commun 3 (1) 25 2023-03-27 2023-03-27
Correlative Chemical Imaging and Spatial Chemometrics Delineate Alzheimer Plaque Heterogeneity at High Spatial Resolution. Wehrli PM, Ge J, Michno W, ..., Blennow K, Hanrieder J JACS Au 3 (3) 762-774 2023-03-27 2023-03-07
Costunolide and Parthenolide Ameliorate MPP+ Induced Apoptosis in the Cellular Parkinson's Disease Model. Arslan ME, Türkez H, Sevim Y, ..., Öner S, Mardinoğlu A Cells 12 (7) - 2023-03-24 2023-03-24
Computational speed-up of large-scale, single-cell model simulations via a fully integrated SBML-based format. Mutsuddy A, Erdem C, Huggins JR, ..., Feltus FA, Birtwistle MR Bioinform Adv 3 (1) vbad039 2023-03-23 2023-03-23
Transcript Isoform Diversity of Ampliconic Genes on the Y Chromosome of Great Apes. Tomaszkiewicz M, Sahlin K, Medvedev P, Makova KD bioRxiv - (-) - 2023-03-18 2023-03-18
Phylogenetic Analysis of Allotetraploid Species Using Polarized Genomic Sequences. Leal JL, Milesi P, Salojärvi J, Lascoux M Syst. Biol. - (-) - 2023-03-18 2023-03-18
TASL Practice Guidance on the Clinical Assessment and Management of Patients with Nonalcoholic Fatty Liver Disease. Yilmaz Y, Zeybel M, Adali G, ..., Kaymakoglu S, Gunsar F Hepatol Forum 4 (Suppl 1) 1-32 2023-03-15 2023-03-15
MEMMAL: A tool for expanding large-scale mechanistic models with machine learned associations and big datasets Erdem C, Birtwistle MR Front. Syst. Biol. 3 (-) - 2023-03-09 2023-03-09
Pre-pregnancy complications - associated factors and wellbeing in early pregnancy: a Swedish cohort study. Gudnadottir U, Du J, Hugerth LW, ..., Fransson E, Brusselaers N BMC Pregnancy Childbirth 23 (1) 153 2023-03-08 2023-03-08
A Mitosome With Distinct Metabolism in the Uncultured Protist Parasite Paramikrocytos canceri (Rhizaria, Ascetosporea). Onuț-Brännström I, Stairs CW, Campos KIA, ..., Bass D, Burki F Genome Biol Evol 15 (3) - 2023-03-03 2023-02-16
Clonal Hematopoiesis and Risk of Incident Lung Cancer. Tian R, Wiley B, Liu J, ..., Bolton KL, Cao Y J Clin Oncol 41 (7) 1423-1433 2023-03-01 2022-12-08
Structural basis of mitochondrial membrane bending by the I-II-III2-IV2 supercomplex. Mühleip A, Flygaard RK, Baradaran R, ..., Sharma V, Amunts A Nature 615 (7954) 934-938 2023-03-00 2023-03-22
PET Imaging of Neutrophil Elastase with 11C-GW457427 in Acute Respiratory Distress Syndrome in Pigs. Puuvuori E, Chiodaroli E, Estrada S, ..., Eriksson O, Antoni G Journal of nuclear medicine : official publication, Society of Nuclear Medicine 64 (3) 423-429 2023-03-00 2022-09-15
PCYT2-regulated lipid biosynthesis is critical to muscle health and ageing. Cikes D, Elsayad K, Sezgin E, ..., Banka S, Penninger JM Nat Metab 5 (3) 495-515 2023-03-00 2023-03-20
In silico tissue generation and power analysis for spatial omics. Baker EAG, Schapiro D, Dumitrascu B, Vickovic S, Regev A Nat. Methods 20 (3) 424-431 2023-03-00 2023-03-02
A palmitate-rich metastatic niche enables metastasis growth via p65 acetylation resulting in pro-metastatic NF-κB signaling. Altea-Manzano P, Doglioni G, Liu Y, ..., Malanchi I, Fendt SM Nat Cancer 4 (3) 344-364 2023-03-00 2023-02-02
Magnetoresponsive fluorescent core-shell nanoclusters for biomedical applications. Saladino GM, Kakadiya R, Ansari SR, Teleki A, Toprak MS Nanoscale Adv 5 (5) 1323-1330 2023-02-28 2023-01-31
Single-Cell Transcriptomics To Define Plasmodium falciparum Stage Transition in the Mosquito Midgut. Mohammed M, Dziedziech A, Sekar V, ..., Vega-Rodriguez J, Ankarklev J Microbiol Spectr 11 (2) e0367122 2023-02-27 2023-02-27
Reconstructing clonal tree for phylo-phenotypic characterization of cancer using single-cell transcriptomics. Jun SH, Toosi H, Mold J, ..., Roth A, Lagergren J Nat Commun 14 (1) 982 2023-02-22 2023-02-22
Not1 and Not4 inversely determine mRNA solubility that sets the dynamics of co-translational events. Allen G, Weiss B, Panasenko OO, ..., Pelechano V, Collart MA Genome Biol. 24 (1) 30 2023-02-20 2023-02-20
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 2023-02-17
Network-based multi-omics integration reveals metabolic at-risk profile within treated HIV-infection. Mikaeloff F, Gelpi M, Benfeitas R, ..., Nielsen SD, Neogi U Elife 12 (-) - 2023-02-16 2023-02-16
An α-π transition in S6 shapes the conformational cycle of the bacterial sodium channel NavAb. Choudhury K, Howard RJ, Delemotte L J. Gen. Physiol. 155 (2) - 2023-02-06 2022-12-14
Hybridization mediated range expansion and climate change resilience in two conifers Karunarathne P, Zhou Q, Lascoux M, Milesi P - - (-) - 2023-02-03 2023-02-03
[18F]MK-7246 for Positron Emission Tomography Imaging of the Beta-Cell Surface Marker GPR44. Cheung P, Amin MA, Zhang B, ..., Odell LR, Eriksson O Pharmaceutics 15 (2) - 2023-02-02 2023-02-02
Combined metabolic activators improve metabolic functions in the animal models of neurodegenerative diseases. Turkez H, Altay O, Yildirim S, ..., Uhlén M, Mardinoglu A Life Sci 314 (-) 121325 2023-02-01 2022-12-26
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 2023-01-12
Diversity and enrichment of breeding material for resilience in European forests Olsson S, Dauphin B, Jorge V, ..., Bastien C, Alia R Forest Ecology and Management 530 (-) 120748 2023-02-00 2023-02-00
Carnitine octanoyltransferase is important for the assimilation of exogenous acetyl-L-carnitine into acetyl-CoA in mammalian cells. Hsu J, Fatuzzo N, Weng N, ..., Nasca C, Khosla C J Biol Chem 299 (2) 102848 2023-02-00 2022-12-30
A GC-centered view of 3D genome organization. Bouwman BA, Crosetto N, Bienko M Curr. Opin. Genet. Dev. 78 (-) 102020 2023-02-00 2023-01-05
Editorial: Effects of hormonal contraceptives on the brain. Pletzer B, Comasco E, Hidalgo-Lopez E, Lacreuse A, Derntl B Front Endocrinol (Lausanne) 14 (-) 1129203 2023-01-31 2023-01-31
Combined metabolic activators improve cognitive functions in Alzheimer's disease patients: a randomised, double-blinded, placebo-controlled phase-II trial. Yulug B, Altay O, Li X, ..., Uhlén M, Mardinoglu A Transl Neurodegener 12 (1) 4 2023-01-26 2023-01-26
Ellagic Acid and Its Metabolites as Potent and Selective Allosteric Inhibitors of Liver Pyruvate Kinase. Battisti UM, Gao C, Akladios F, ..., Mardinoglu A, Grøtli M Nutrients 15 (3) - 2023-01-22 2023-01-22
TP53-mediated clonal hematopoiesis confers increased risk for incident atherosclerotic disease. Zekavat SM, Viana-Huete V, Matesanz N, ..., Fuster JJ, Klarin D Nat Cardiovasc Res 2 (-) 144-158 2023-01-16 2023-03-24
Synchronous effective population size changes and genetic stability of forest trees through glacial cycles Milesi P, Kastally C, Dauphin B, ..., Pyhäjärvi T, None - - (-) - 2023-01-06 2023-01-06
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 2022-11-09
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 2022-06-09

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