Publications 2024

Title Authors Journal Published Online
Microneedles loaded with lipid nanocarriers for local treatment of vulvovaginal candidiasis Udayakumar P, Škalko-Basnet N, Salas Cotaquispe CF, ..., Du J, Teleki A - - (-) - 2024-11-25 2024-11-25
The early transcriptional and post-transcriptional responses to fluconazole in sensitive and resistant Candida albicans. Stevens I, Silao FG, Huch S, ..., Ljungdahl PO, Pelechano V Sci Rep 14 (1) 29012 2024-11-22 2024-11-22
Flipping a switch on BRD4: How to control the do-it-all. van Hout FAH, Vihervaara A Mol. Cell 84 (22) 4257-4259 2024-11-21 2024-11-23
Single-molecule states link transcription factor binding to gene expression. Doughty BR, Hinks MM, Schaepe JM, ..., Bintu L, Greenleaf WJ Nature - (-) - 2024-11-20 2024-11-20
Complete genome sequences of the prosthecate dimorphic bacteria Brevundimonas intermedia CB63T and Brevundimonas staleyi FWC43T. Hallgren J, Daneby F, Jonas K Microbiol Resour Announc - (-) e0105024 2024-11-20 2024-11-20
Progestagens and progesterone receptor modulation: Effects on the brain, mood, stress, and cognition in females. Bencker C, Gschwandtner L, Nayman S, ..., Bixo M, Comasco E Front Neuroendocrinol - (-) 101160 2024-11-06 2024-11-06
The ABCF ATPase New1 resolves translation termination defects associated with specific tRNAArg and tRNALys isoacceptors in the P site. Turnbull K, Paternoga H, von der Weth E, ..., Wilson DN, Hauryliuk V Nucleic Acids Res. 52 (19) 12005-12020 2024-10-28 2024-09-01
White matter integrity upon progesterone antagonism in individuals with premenstrual dysphoric disorder: A randomized placebo-controlled diffusion tensor imaging study. Kaltsouni E, Gu X, Wikström J, ..., Sundström-Poromaa I, Comasco E Prog Neuropsychopharmacol Biol Psychiatry 136 (-) 111179 2024-10-23 2024-10-23
Fish are poor sentinels for surveillance of riverine AMR Tskhay F, Köbsch C, Elena AX, ..., Berendonk TU, Klümper U - - (-) - 2024-10-22 2024-10-22
Resilience of genetic diversity in forest trees over the Quaternary. Milesi P, Kastally C, Dauphin B, ..., Pyhäjärvi T, GenTree Consortium Nat Commun 15 (1) 8538 2024-10-14 2024-10-14
Metagenomic assemblies tend to break around antibiotic resistance genes. Abramova A, Karkman A, Bengtsson-Palme J BMC Genomics 25 (1) 959 2024-10-14 2024-10-14
Peripartum depression symptom trajectories, telomere length and genotype, and adverse childhood experiences. Vrettou M, Lager S, Toffoletto S, ..., Skalkidou A, Comasco E BMC Psychiatry 24 (1) 661 2024-10-08 2024-10-08
Genetic Adaptation to Amoxicillin inEscherichia coli: The Limited Role ofdinBandkatE Teichmann L, Wenne M, Luitwieler S, ..., Bengtsson-Palme J, Kuile Bt - - (-) - 2024-10-06 2024-10-06
Multiplexed chromatin immunoprecipitation sequencing for quantitative study of histone modifications and chromatin factors. Kumar B, Navarro C, Yung PYK, ..., Martin M, Elsässer SJ Nat Protoc - (-) - 2024-10-03 2024-10-03
The genetic architecture of repeated local adaptation to climate in distantly related plants. Whiting JR, Booker TR, Rougeux C, ..., Zhou L, Yeaman S Nat Ecol Evol 8 (10) 1933-1947 2024-10-00 2024-08-26
The ACROBAT 2022 challenge: Automatic registration of breast cancer tissue. Weitz P, Valkonen M, Solorzano L, ..., Ruusuvuori P, Rantalainen M Med Image Anal 97 (-) 103257 2024-10-00 2024-07-01
The 'queen of the Andes' (Puya raimondii) is genetically fragile and fragmented: a consequence of long generation time and semelparity? Liu L, James J, Zhang Y, ..., Lascoux M, Ge X New Phytol. 244 (1) 277-291 2024-10-00 2024-08-12
Bayesian polynomial neural networks and polynomial neural ordinary differential equations. Fronk C, Yun J, Singh P, Petzold L PLoS Comput Biol 20 (10) e1012414 2024-10-00 2024-10-10
The regulatory landscape of interacting RNA and protein pools in cellular homeostasis and cancer. Gallardo-Dodd CJ, Kutter C Hum Genomics 18 (1) 109 2024-09-27 2024-09-27
The Organelle in the Ointment: improved detection of cryptic mitochondrial reads resolves many unknown sequences in cross-species microbiome analyses Sonett D, Brown T, Bengtsson-Palme J, Padilla-Gamiño JL, Zaneveld JR ISME Commun - (-) - 2024-09-24 2024-09-24
Improved sub-genomic RNA prediction with the ARTIC protocol. Baudeau T, Sahlin K Nucleic Acids Res. 52 (17) e82 2024-09-23 2024-08-16
Epigenetic regulation of cell state by H2AFY governs immunogenicity in high-risk neuroblastoma. Nagarajan D, Parracho RT, Corujo D, ..., Buschbeck M, Mao Y J. Clin. Invest. - (-) - 2024-09-10 2024-09-10
The protein domains of vertebrate species in which selection is more effective have greater intrinsic structural disorder Weibel CA, Wheeler AL, James JE, ..., McShea H, Masel J Elife 12 (-) - 2024-09-06 2024-09-06
Comprehensive analysis of the RBP regulome reveals functional modules and drug candidates in liver cancer Garbulowski M, Mosca R, Gallardo-Dodd CJ, Kutter C, Sonnhammer ELL - - (-) - 2024-09-06 2024-09-06
Development of a three-dimensional scoring model for the assessment of continuous glucose monitoring data in type 1 diabetes. Dawnbringer J, Hill H, Lundgren M, ..., Carlsson PO, Espes D BMJ Open Diabetes Res Care 12 (4) - 2024-09-05 2024-09-05
Caveolin assemblies displace one bilayer leaflet to organize and bend membranes. Doktorova M, Daum S, Ebenhan J, ..., Kenworthy AK, Levental I bioRxiv - (-) - 2024-09-04 2024-09-04
Cryo-EM images of phase-separated lipid bilayer vesicles analyzed with a machine-learning approach. Sharma KD, Doktorova M, Waxham MN, Heberle FA Biophys. J. 123 (17) 2877-2891 2024-09-03 2024-04-30
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 Mol. Ecol. 33 (17) - 2024-09-00 2024-08-15
MDverse, shedding light on the dark matter of molecular dynamics simulations Tiemann JK, Szczuka M, Bouarroudj L, ..., Chavent M, Poulain P Elife 12 (-) - 2024-08-30 2024-08-30
Structure prediction of alternative protein conformations Bryant P, Noé F Nat Commun 15 (1) - 2024-08-26 2024-08-26
Mechanistic modeling of cell viability assays with in silico lineage tracing. Mutsuddy A, Huggins JR, Amrit A, ..., Calhoun JC, Birtwistle MR bioRxiv - (-) - 2024-08-26 2024-08-26
Escherichia coli in urban marine sediments: interpreting virulence, biofilm formation, halotolerance, and antibiotic resistance to infer contamination or naturalization. Erb IK, Suarez C, Frank EM, ..., Lindberg E, Paul CJ FEMS Microbes 5 (-) xtae024 2024-08-14 2024-08-14
OCT1 (SLC22A1) transporter kinetics and regulation in primary human hepatocyte 3D spheroids. Mickols E, Meyer A, Handin N, ..., Karlgren M, Artursson P Sci Rep 14 (1) 17334 2024-07-27 2024-07-27
Complex Polyploids: Origins, Genomic Composition, and Role of Introgressed Alleles. Leal JL, Milesi P, Hodková E, ..., Salojärvi J, Lascoux M Syst. Biol. 73 (2) 392-418 2024-07-27 2024-04-13
Adaptive Robust Learning using Latent Bernoulli Variables Karakulev A, Zachariah D, Singh P Proceedings of the 41st International Conference on Machine Learning, PMLR 235 (-) 23105-23122 2024-07-27 2023-12-04
Improved protein complex prediction with AlphaFold-multimer by denoising the MSA profile Bryant P, Noé F PLoS Comput Biol 20 (7) e1012253 2024-07-25 2024-07-25
An intracellular hydrophobic nexus critical for hERG1 channel slow deactivation. Stevens-Sostre WA, Flores-Aldama L, Bustos D, ..., Delemotte L, Robertson GA Biophys. J. 123 (14) 2024-2037 2024-07-16 2024-01-12
CCG-1423-derived compounds reduce global RNA synthesis and inhibit transcriptional responses. Prajapati B, Sokolova M, Sidorenko E, ..., Vihervaara A, Vartiainen MK J. Cell. Sci. 137 (13) - 2024-07-01 2024-07-15
Detection and quantification of Na,K-ATPase dimers in the plasma membrane of living cells by FRET-FCS. Nordahl L, Akkuratov EE, Heimgärtner J, ..., Wennmalm S, Brismar H Biochim Biophys Acta Gen Subj 1868 (7) 130619 2024-07-00 2024-04-20
Comparison of Xrn1 and Rat1 5' → 3' exoribonucleases in budding yeast supports the specific role of Xrn1 in cotranslational mRNA decay. Pérez-Ortín JE, Jordán-Pla A, Zhang Y, ..., Pelechano V, García-Martínez J Yeast 41 (7) 458-472 2024-07-00 2024-06-14
Design of linear and cyclic peptide binders of different lengths from protein sequence information Li Q, Vlachos EN, Bryant P - - (-) - 2024-06-22 2024-06-22
Cortical morphology variations during the menstrual cycle in individuals with and without premenstrual dysphoric disorder. Dubol M, Stiernman L, Sundström-Poromaa I, Bixo M, Comasco E J Affect Disord 355 (-) 470-477 2024-06-15 2024-03-27
Pharmaceutical Quality by Design Approach to Develop High-Performance Nanoparticles for Magnetic Hyperthermia. Ansari SR, Suárez-López YDC, Thersleff T, ..., Rinaldi-Ramos CM, Teleki A ACS Nano 18 (23) 15284-15302 2024-06-11 2024-05-30
Fluoroquinolone-Specific Resistance Trajectories inE. coliand their Dependence on the SOS-Response Teichmann L, Luitwieler S, Bengtsson-Palme J, ter Kuile B - - (-) - 2024-06-06 2024-06-06
Chemical signatures delineate heterogeneous amyloid plaque populations across the Alzheimer's disease spectrum. Koutarapu S, Ge J, Dulewicz M, ..., Schöll M, Hanrieder J bioRxiv - (-) - 2024-06-03 2024-06-03
Mid-pregnancy allopregnanolone levels and trajectories of perinatal depressive symptoms. Björväng RD, Walldén Y, Fransson E, ..., Sundström-Poromaa I, Skalkidou A Psychoneuroendocrinology 164 (-) 107009 2024-06-00 2024-02-28
Structure prediction of protein-ligand complexes from sequence information with Umol Bryant P, Kelkar A, Guljas A, Clementi C, Noé F Nat Commun 15 (1) - 2024-05-28 2024-05-28
Effectiveness and Cost-effectiveness of Artificial Intelligence-assisted Pathology for Prostate Cancer Diagnosis in Sweden: A Microsimulation Study. Du X, Hao S, Olsson H, ..., Eklund M, Clements M Eur Urol Oncol - (-) - 2024-05-23 2024-05-23
The full spectrum of SLC22 OCT1 mutations illuminates the bridge between drug transporter biophysics and pharmacogenomics. Yee SW, Macdonald CB, Mitrovic D, ..., Giacomini KM, Coyote-Maestas W Mol. Cell 84 (10) 1932-1947.e10 2024-05-16 2024-05-03
Modeling brain sex in the limbic system as phenotype for female-prevalent mental disorders. Matte Bon G, Kraft D, Comasco E, Derntl B, Kaufmann T Biol Sex Differ 15 (1) 42 2024-05-15 2024-05-15
Iron oxide nanoparticles for treatment and diagnosis of chronic inflammatory diseases: A systematic review. Ansari SR, Mahajan J, Teleki A Wiley Interdiscip Rev Nanomed Nanobiotechnol 16 (3) e1963 2024-05-10 2024-05-10
White matter volume and treatment with selective progesterone receptor modulator in patients with premenstrual dysphoric disorder. Kaltsouni E, Wikström J, Lanzenberger R, Sundström-Poromaa I, Comasco E Psychoneuroendocrinology 163 (-) 106977 2024-05-00 2024-01-22
Cellular energy regulates mRNA degradation in a codon-specific manner. Tomaz da Silva P, Zhang Y, Theodorakis E, ..., Pelechano V, Gagneur J Mol Syst Biol 20 (5) 506-520 2024-05-00 2024-03-15
Loss of NEDD8 in cancer cells causes vulnerability to immune checkpoint blockade in triple-negative breast cancer. Papakyriacou I, Kutkaite G, Rúbies Bedós M, ..., Menden MP, Mao Y Nat Commun 15 (1) 3581 2024-04-27 2024-04-27
Efficient calculation of orientation-dependent lipid dynamics from membrane simulations. Doktorova M, Khelashvili G, Brown MF bioRxiv - (-) - 2024-04-15 2024-04-15
Hybridization mediated range expansion and climate change resilience in two keystone tree species of boreal forests. Karunarathne P, Zhou Q, Lascoux M, Milesi P Glob Chang Biol 30 (4) e17262 2024-04-00 2024-03-28
Estrogen receptor activation remodels TEAD1 gene expression to alleviate hepatic steatosis. Sommerauer C, Gallardo-Dodd CJ, Savva C, ..., Williams C, Kutter C Mol Syst Biol 20 (4) 374-402 2024-04-00 2024-03-08
Direct Salmonella injection into enteroid cells allows the study of host-pathogen interactions in the cytosol with high spatiotemporal resolution. Ernst C, Andreassen PR, Giger GH, ..., Hardt WD, Vorholt JA PLoS Biol. 22 (4) e3002597 2024-04-00 2024-04-29
Despite structural identity, ace-1 heterogenous duplication resistance alleles are quite diverse in Anopheles mosquitoes. Claret JL, Di-Liegro M, Namias A, ..., Milesi P, Labbé P Heredity (Edinb) 132 (4) 179-191 2024-04-00 2024-01-27
Designing efficient randstrobes for sequence similarity analyses. Karami M, Soltani Mohammadi A, Martin M, ..., Patro R, Sahlin K Bioinformatics 40 (4) - 2024-03-29 2024-04-05
Low coverage of species constrains the use of DNA barcoding to assess mosquito biodiversity. Moraes Zenker M, Portella TP, Pessoa FAC, Bengtsson-Palme J, Galetti PM Sci Rep 14 (1) 7432 2024-03-28 2024-03-28
Salmonella T3SS-2 virulence enhances gut-luminal colonization by enabling chemotaxis-dependent exploitation of intestinal inflammation. Gül E, Huuskonen J, Abi Younes A, ..., Bakkeren E, Hardt WD Cell Reports 43 (3) 113925 2024-03-26 2024-03-07
ProQ-dependent activation of Salmonella virulence genes mediated by post-transcriptional control of PhoP synthesis. Bergman S, Andresen L, Kjellin J, ..., Sellin ME, Holmqvist E mSphere 9 (3) e0001824 2024-03-26 2024-02-27
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, Navarro F Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1867 (1) 194995 2024-03-00 2023-11-13
Predictive biomarkers of rapidly developing insulin deficiency in children with type 1 diabetes. Lundkvist P, Grönberg A, Carlsson PO, Ludvigsson J, Espes D BMJ Open Diabetes Res Care 12 (1) - 2024-02-27 2024-02-27
Equine enteroid-derived monolayers recapitulate key features of parasitic intestinal nematode infection. Hellman S, Martin F, Tydén E, ..., Svedberg P, Fossum C Vet Res 55 (1) 25 2024-02-27 2024-02-27
Spatial Neurolipidomics at the Single Amyloid-β Plaque Level in Postmortem Human Alzheimer's Disease Brain. Michno W, Bowman A, Jha D, ..., Heeren RMA, Hanrieder J ACS Chem Neurosci 15 (4) 877-888 2024-02-21 2024-02-01
Targeting MYC induces lipid droplet accumulation by upregulation of HILPDA in clear cell renal cell carcinoma. Sainero-Alcolado L, Garde-Lapido E, Snaebjörnsson MT, ..., Schulze A, Arsenian-Henriksson M Proc. Natl. Acad. Sci. U.S.A. 121 (7) e2310479121 2024-02-13 2024-02-09
Stress biology: Complexity and multifariousness in health and disease. Mayer MP, Blair L, Blatch GL, ..., Wang SXY, Zininga T Cell Stress Chaperones 29 (1) 143-157 2024-02-00 2024-02-03
Intrinsic deletion at 10q23.31, including the PTEN gene locus, is aggravated upon CRISPR-Cas9-mediated genome engineering in HAP1 cells mimicking cancer profiles. Geng K, Merino LG, Veiga RG, ..., Brinkman EK, Kutter C Life Sci. Alliance 7 (2) - 2024-02-00 2023-11-20
A two-step activation mechanism enables mast cells to differentiate their response between extracellular and invasive enterobacterial infection. von Beek C, Fahlgren A, Geiser P, ..., Pejler G, Sellin ME Nat Commun 15 (1) 904 2024-01-30 2024-01-30
A structurally precise mechanism links an epilepsy-associated KCNC2 potassium channel mutation to interneuron dysfunction. Clatot J, Currin CB, Liang Q, ..., Covarrubias M, Goldberg EM Proc. Natl. Acad. Sci. U.S.A. 121 (3) e2307776121 2024-01-16 2024-01-09
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 67 (1) 199-208 2024-01-00 2023-11-07
Electroencephalography findings in menstrually-related mood disorders: A critical review. Kaltsouni E, Schmidt F, Zsido RG, ..., Sumner RL, Comasco E Front Neuroendocrinol 72 (-) 101120 2024-01-00 2024-01-02
Aberrant microbiomes are associated with increased antibiotic resistance gene load in hybrid mice. Jarquín-Díaz VH, Ferreira SCM, Balard A, ..., Forslund-Startceva SK, Heitlinger E ISME Commun 4 (1) ycae053 2024-01-00 2024-04-15
Transfer Learning-Assisted Inverse Modeling in Nanophotonics Based on Mixture Density Networks Cheng L, Singh P, Ferranti F IEEE Access 12 (-) 55218-55224 2024-00-00 2024-00-00

Publications 9.5.1