Swiss Institute of Bioinformatics

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1639 publications

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2022
Limited evidence for blood eQTLs in human sexual dimorphism.
Porcu E., Claringbould A., Weihs A., Lepik K., BIOS Consortium, Richardson T.G., Völker U., Santoni F.A., Teumer A., Franke L. et al., 2022/08/11. Genome medicine, 14 (1) p. 89. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_4AC82BE10423]
Islet Gene View-a tool to facilitate islet research.
Asplund O., Storm P., Chandra V., Hatem G., Ottosson-Laakso E., Mansour-Aly D., Krus U., Ibrahim H., Ahlqvist E., Tuomi T. et al., 2022/08/10. Life science alliance, 5 (12) pp. e202201376. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_1B289C537F38]
Dynamic and adaptive cancer stem cell population admixture in colorectal neoplasia.
Vasquez E.G., Nasreddin N., Valbuena G.N., Mulholland E.J., Belnoue-Davis H.L., Eggington H.R., Schenck R.O., Wouters V.M., Wirapati P., Gilroy K. et al., 2022/08/04. Cell stem cell, 29 (8) pp. 1213-1228.e8. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_F6FA89020738]
Federating and querying heterogeneous and distributed Web APIs and triple stores
Mendes de Farias Tarcisio, Dessimoz Christophe, Ayllon Benitez Aaron, Yang Chen, Long Jiao, Sima Ana-Claudia, 2022/08/02. dans 2022 ISMB Bio-Ontologies Community of Special Interest. Peer-reviewed.
[URN][DOI][serval:BIB_6A2C0BEAD983]
 
A Baseline Cellular Antiviral State Is Maintained by cGAS and Its Most Frequent Naturally Occurring Variant rs610913.
Kazmierski J., Elsner C., Döhner K., Xu S., Ducroux A., Pott F., Jansen J., Thorball C.W., Zeymer O., Zhou X. et al., 2022/08/01. Journal of immunology, 209 (3) pp. 535-547. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_99B41F98BEAA]
Dynamics of sex-biased gene expression during development in the stick insect Timema californicum.
Djordjevic J., Dumas Z., Robinson-Rechavi M., Schwander T., Parker D.J., 2022/08. Heredity, 129 (2) pp. 113-122. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_A0C665A95881]
 
Every islet matters: improving the impact of human islet research.
Gloyn A.L., Ibberson M., Marchetti P., Powers A.C., Rorsman P., Sander M., Solimena M., 2022/08. Nature metabolism, 4 (8) pp. 970-977. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_D72E157A4E19]
Haematological changes from conception to childbirth: An indicator of major pregnancy complications.
Patxot M., Stojanov M., Ojavee S.E., Pescini Gobert R., Kutalik Z., Gavillet M., Baud D., Robinson M.R., 2022/08. European journal of haematology, 109 (5) pp. 566-575. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_296C163E9E74]
 
Nodal cytotoxic peripheral T-cell lymphoma occurs frequently in the clinical setting of immunodysregulation and is associated with recurrent epigenetic alterations.
Nicolae A., Bouilly J., Lara D., Fataccioli V., Lemonnier F., Drieux F., Parrens M., Robe C., Poullot E., Bisig B. et al., 2022/08. Modern pathology, 35 (8) pp. 1126-1136. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_F6CBED5D1F0D]
Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR
Waterhouse Robert M., Adam-Blondon Anne-Françoise, Agosti Donat, Baldrian Petr, Balech Bachir, Corre Erwan, Davey Robert P., Lantz Henrik, Pesole Graziano, Quast Christian et al., 2022/08/01. F1000Research, 10 p. 1238. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_591C02C8A19F]
 
Selection of data sets for FAIRification in drug discovery and development: Which, why, and how?
Alharbi E., Gadiya Y., Henderson D., Zaliani A., Delfin-Rossaro A., Cambon-Thomsen A., Kohler M., Witt G., Welter D., Juty N. et al., 2022/08. Drug discovery today, 27 (8) pp. 2080-2085. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_7C02573AB3FE]
Improving polygenic prediction with genetically inferred ancestry.
Naret O., Kutalik Z., Hodel F., Xu Z.M., Marques-Vidal P., Fellay J., 2022/07/14. HGG advances, 3 (3) p. 100109. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_DFFCB5547228]
Polynomial Mendelian randomization reveals non-linear causal effects for obesity-related traits.
Sulc J., Sjaarda J., Kutalik Z., 2022/07/14. HGG advances, 3 (3) p. 100124. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_1334EAA2E10D]
A CD4+ T cell reference map delineates subtype-specific adaptation during acute and chronic viral infections.
Andreatta M., Tjitropranoto A., Sherman Z., Kelly M.C., Ciucci T., Carmona S.J., 2022/07/13. eLife, 11 pp. e76339. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_0B25A9B1D7B9]
ADAMTS18<sup>+</sup> villus tip telocytes maintain a polarized VEGFA signaling domain and fenestrations in nutrient-absorbing intestinal blood vessels.
Bernier-Latmani J., Mauri C., Marcone R., Renevey F., Durot S., He L., Vanlandewijck M., Maclachlan C., Davanture S., Zamboni N. et al., 2022/07/09. Nature communications, 13 (1) p. 3983. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_AC4B62DD6AED]
 
Dissecting the treatment-naive ecosystem of human melanoma brain metastasis.
Biermann J., Melms J.C., Amin A.D., Wang Y., Caprio L.A., Karz A., Tagore S., Barrera I., Ibarra-Arellano M.A., Andreatta M. et al., 2022/07/07. Cell, 185 (14) pp. 2591-2608.e30. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_10AEEAB455A8]
Discovery of archaeal fusexins homologous to eukaryotic HAP2/GCS1 gamete fusion proteins.
Moi D., Nishio S., Li X., Valansi C., Langleib M., Brukman N.G., Flyak K., Dessimoz C., de Sanctis D., Tunyasuvunakool K. et al., 2022/07/06. Nature communications, 13 (1) p. 3880. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_DCF19342536B]
The Quest for Orthologs orthology benchmark service in 2022.
Nevers Y., Jones TEM, Jyothi D., Yates B., Ferret M., Portell-Silva L., Codo L., Cosentino S., Marcet-Houben M., Vlasova A. et al., 2022/07/05. Nucleic acids research, 50 (W1) pp. W623-W632. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_09AB7652C265]
Actin assembly requirements of the formin Fus1 to build the fusion focus.
Billault-Chaumartin I., Michon L., Anderson C.A., Yde S.E., Suarez C., Iwaszkiewicz J., Zoete V., Kovar D.R., Martin S.G., 2022/07/01. Journal of cell science, 135 (13) pp. jcs260289. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_3B4B0AEC5924]
 
Heterozygous variants in CTR9, which encodes a major component of the PAF1 complex, are associated with a neurodevelopmental disorder.
Meuwissen M., Verstraeten A., Ranza E., Iwaszkiewicz J., Bastiaansen M., Mateiu L., Nemegeer M., Meester JAN, Afenjar A., Amaral M. et al., 2022/07. Genetics in medicine, 24 (7) pp. 1583-1591. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_216EBEECE768]
Meta-omics-aided isolation of an elusive anaerobic arsenic-methylating soil bacterium.
Viacava K., Qiao J., Janowczyk A., Poudel S., Jacquemin N., Meibom K.L., Shrestha H.K., Reid M.C., Hettich R.L., Bernier-Latmani R., 2022/07. The ISME journal, 16 (7) pp. 1740-1749. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_B03B7173E581]
 
Mitofusins Mfn1 and Mfn2 Are Required to Preserve Glucose- but Not Incretin-Stimulated β-Cell Connectivity and Insulin Secretion.
Georgiadou E., Muralidharan C., Martinez M., Chabosseau P., Akalestou E., Tomas A., Wern FYS, Stylianides T., Wretlind A., Legido-Quigley C. et al., 2022/07/01. Diabetes, 71 (7) pp. 1472-1489. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_0F244C712FBE]
Regenerating islet-derived protein 3α: A promising therapy for diabetes. Preliminary data in rodents and in humans.
Le Lay A., Philippe E., Roth F., Sanchez-Archidona A.R., Mehl F., Denom J., Prasad R., Asplund O., Hansson O., Ibberson M. et al., 2022/07. Heliyon, 8 (7) pp. e09944. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_2647F11FFB1B]
Single-cell and bulk transcriptome sequencing identifies two epithelial tumor cell states and refines the consensus molecular classification of colorectal cancer.
Joanito I., Wirapati P., Zhao N., Nawaz Z., Yeo G., Lee F., Eng CLP, Macalinao D.C., Kahraman M., Srinivasan H. et al., 2022/07. Nature genetics, 54 (7) pp. 963-975. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_27A9BBA898C9]
Monocyte Transcriptional Responses to Mycobacterium tuberculosis Associate with Resistance to Tuberculin Skin Test and Interferon Gamma Release Assay Conversion.
Simmons J.D., Dill-McFarland K.A., Stein C.M., Van P.T., Chihota V., Ntshiqa T., Maenetje P., Peterson G.J., Benchek P., Nsereko M. et al., 2022/06/29. mSphere, 7 (3) pp. e0015922. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_2FD7AA544175]
ISMB 2022 proceedings.
Dessimoz C., Roy S., 2022/06/24. Bioinformatics, 38 (Supplement_1) pp. i8-i9. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_3B1BABE512BE]
Gene Amplification of CYP51B: a New Mechanism of Resistance to Azole Compounds in Trichophyton indotineae.
Yamada T., Yaguchi T., Maeda M., Alshahni M.M., Salamin K., Guenova E., Feuermann M., Monod M., 2022/06/21. Antimicrobial agents and chemotherapy, 66 (6) pp. e0005922. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_05785D0F47A2]
The 3D architecture of the pepper genome and its relationship to function and evolution.
Liao Y., Wang J., Zhu Z., Liu Y., Chen J., Zhou Y., Liu F., Lei J., Gaut B.S., Cao B. et al., 2022/06/16. Nature communications, 13 (1) p. 3479. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_D392FA5AD04C]
Mosquito saliva enhances virus infection through sialokinin-dependent vascular leakage.
Lefteri D.A., Bryden S.R., Pingen M., Terry S., McCafferty A., Beswick E.F., Georgiev G., Van der Laan M., Mastrullo V., Campagnolo P. et al., 2022/06/14. Proceedings of the National Academy of Sciences of the United States of America, 119 (24) pp. e2114309119. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_141ADBB062C5]
Differential and shared genetic effects on kidney function between diabetic and non-diabetic individuals.
Winkler T.W., Rasheed H., Teumer A., Gorski M., Rowan B.X., Stanzick K.J., Thomas L.F., Tin A., Hoppmann A., Chu A.Y. et al., 2022/06/13. Communications biology, 5 (1) p. 580. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_2E29F39E6E69]
How HLA diversity is apportioned: influence of selection and relevance to transplantation.
Maróstica A.S., Nunes K., Castelli E.C., Silva NSB, Weir B.S., Goudet J., Meyer D., 2022/06/06. Philosophical transactions of the Royal Society of London. Series B, Biological sciences, 377 (1852) p. 20200420. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_40FE833CC14F]
Exploring new genomic territories with emerging model insects.
Feron R., Waterhouse R.M., 2022/06. Current opinion in insect science, 51 p. 100902. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_690679C318FF]
Cross-reactive immunity potentially drives global oscillation and opposed alternation patterns of seasonal influenza A viruses.
Gatti L., Koenen M.H., Zhang J.D., Anisimova M., Verhagen L.M., Schutten M., Osterhaus A., van der Vries E., 2022/05/25. Scientific reports, 12 (1) p. 8883. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_EAB9B345286E]
 
The risk of COVID-19 death is much greater and age dependent with type I IFN autoantibodies.
Manry J., Bastard P., Gervais A., Le Voyer T., Rosain J., Philippot Q., Michailidis E., Hoffmann H.H., Eto S., Garcia-Prat M. et al., 2022/05/24. Proceedings of the National Academy of Sciences of the United States of America, 119 (21) pp. e2200413119. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_1C589D62C589]
 
SKIOME Project: a curated collection of skin microbiome datasets enriched with study-related metadata.
Agostinetto G., Bozzi D., Porro D., Casiraghi M., Labra M., Bruno A., 2022/05/16. Database, 2022 pp. baac033. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_8003612B52D7]
OMAMO: orthology-based alternative model organism selection.
Nicheperovich A., Altenhoff A.M., Dessimoz C., Majidian S., 2022/05/13. Bioinformatics, 38 (10) pp. 2965-2966. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_E49811D00537]
Apelin-driven endothelial cell migration sustains intestinal progenitor cells and tumor growth.
Bernier-Latmani J., Cisarovsky C., Mahfoud S., Ragusa S., Dupanloup I., Barras D., Renevey F., Nassiri S., Anderle P., Squadrito M.L. et al., 2022/05. Nature cardiovascular research, 1 (5) pp. 476-490. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_998EFE1BCFC2]
CrowdGO: Machine learning and semantic similarity guided consensus Gene Ontology annotation.
Reijnders MJMF, Waterhouse R.M., 2022/05. PLoS computational biology, 18 (5) pp. e1010075. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_4EB542E53FA1]
Sensitive identification of neoantigens and cognate TCRs in human solid tumors.
Arnaud M., Chiffelle J., Genolet R., Navarro Rodrigo B., Perez MAS, Huber F., Magnin M., Nguyen-Ngoc T., Guillaume P., Baumgaertner P. et al., 2022/05. Nature biotechnology, 40 (5) pp. 656-660. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_18BFBDDF727B]
scGate: marker-based purification of cell types from heterogeneous single-cell RNA-seq datasets.
Andreatta M., Berenstein A.J., Carmona S.J., 2022/04/28. Bioinformatics, 38 (9) pp. 2642-2644. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_241F222A7909]
Estimating RNA dynamics using one time point for one sample in a single-pulse metabolic labeling experiment.
Hersch M., Biasini A., Marques A.C., Bergmann S., 2022/04/22. BMC bioinformatics, 23 (1) p. 147. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_DEE37AA016C5]
Tcf1 is essential for initiation of oncogenic Notch1-driven chromatin topology in T-ALL.
Antoszewski M., Fournier N., Ruiz Buendía G.A., Lourenco J., Liu Y., Sugrue T., Dubey C., Nkosi M., Pritchard CEJ, Huijbers I.J. et al., 2022/04/21. Blood, 139 (16) pp. 2483-2498. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_BB62887871C5]
Loss of vascular endothelial notch signaling promotes spontaneous formation of tertiary lymphoid structures.
Fleig S., Kapanadze T., Bernier-Latmani J., Lill J.K., Wyss T., Gamrekelashvili J., Kijas D., Liu B., Hüsing A.M., Bovay E. et al., 2022/04/19. Nature communications, 13 (1) p. 2022. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_513AD0411BD1]
 
From pharmacogenetics to pharmaco-omics: Milestones and future directions.
Auwerx C., Sadler M.C., Reymond A., Kutalik Z., 2022/04/14. HGG advances, 3 (2) p. 100100. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_4359AD13D7C0]
Anopheles mosquitoes reveal new principles of 3D genome organization in insects.
Lukyanchikova V., Nuriddinov M., Belokopytova P., Taskina A., Liang J., Reijnders MJMF, Ruzzante L., Feron R., Waterhouse R.M., Wu Y. et al., 2022/04/12. Nature communications, 13 (1) p. 1960. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_9458C75BD0A6]
“Phylogenetics in the Genomic Era” brings together experts in the field to present a comprehensive synthesis
Waterhouse Robert, Meusemann Karen, 2022/04/08. Peer Community In Genomics.
[URN][DOI][serval:BIB_A9F85EF90099]
 
The individual and global impact of copy-number variants on complex human traits.
Auwerx C., Lepamets M., Sadler M.C., Patxot M., Stojanov M., Baud D., Mägi R., Estonian Biobank Research Team, Porcu E., Reymond A. et al., 2022/04/07. American journal of human genetics, 109 (4) pp. 647-668. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_73913556ECE0]
 
Candida albicans commensalism in the oral mucosa is favoured by limited virulence and metabolic adaptation.
Lemberg C., Martinez de San Vicente K., Fróis-Martins R., Altmeier S., Tran VDT, Mertens S., Amorim-Vaz S., Rai L.S., d'Enfert C., Pagni M. et al., 2022/04. PLoS pathogens, 18 (4) pp. e1010012. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_4F099EB97710]
 
CNN-Based Image Reconstruction Method for Ultrafast Ultrasound Imaging.
Perdios D., Vonlanthen M., Martinez F., Arditi M., Thiran J.P., 2022/04. IEEE transactions on ultrasonics, ferroelectrics, and frequency control, 69 (4) pp. 1154-1168. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_AAD95B72674D]
GCAT|Panel, a comprehensive structural variant haplotype map of the Iberian population from high-coverage whole-genome sequencing.
Valls-Margarit J., Galván-Femenía I., Matías-Sánchez D., Blay N., Puiggròs M., Carreras A., Salvoro C., Cortés B., Amela R., Farre X. et al., 2022/03/21. Nucleic acids research, 50 (5) pp. 2464-2479. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_F0C33E12626F]
Long-distance dispersal of pigeons and doves generated new ecological opportunities for host-switching and adaptive radiation by their parasites.
Boyd B.M., Nguyen N.P., Allen J.M., Waterhouse R.M., Vo K.B., Sweet A.D., Clayton D.H., Bush S.E., Shapiro M.D., Johnson K.P., 2022/03/09. Proceedings. Biological sciences, 289 (1970) p. 20220042. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_95E61A4ED58D]
RAxML Grove: an empirical phylogenetic tree database.
Höhler D., Pfeiffer W., Ioannidis V., Stockinger H., Stamatakis A., 2022/03/04. Bioinformatics, 38 (6) pp. 1741-1742. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_6085E4A2C0E6]
 
Meta-GWAS Reveals Novel Genetic Variants Associated with Urinary Excretion of Uromodulin.
Joseph C.B., Mariniello M., Yoshifuji A., Schiano G., Lake J., Marten J., Richmond A., Huffman J.E., Campbell A., Harris S.E. et al., 2022/03. Journal of the American Society of Nephrology, 33 (3) pp. 511-529. Peer-reviewed.
[DOI][Pmid][serval:BIB_74BD331CF8E5]
The era of reference genomes in conservation genomics.
Formenti G., Theissinger K., Fernandes C., Bista I., Bombarely A., Bleidorn C., Ciofi C., Crottini A., Godoy J.A., Höglund J. et al., 2022/03. Trends in ecology & evolution, 37 (3) pp. 197-202. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_26E78BB97E4C]
Assessing species coverage and assembly quality of rapidly accumulating sequenced genomes.
Feron R., Waterhouse R.M., 2022/02/25. GigaScience, 11 pp. giac006. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_1A9AE144B7E8]
Convergent consequences of parthenogenesis on stick insect genomes.
Jaron K.S., Parker D.J., Anselmetti Y., Tran Van P., Bast J., Dumas Z., Figuet E., François C.M., Hayward K., Rossier V. et al., 2022/02/25. Science advances, 8 (8) pp. eabg3842. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_F7578E44D8BF]
Wei2GO: weighted sequence similarity-based protein function prediction
Reijnders Maarten J.M.F., 2022/02/15. PeerJ, 10 pp. e12931. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_A0D1AB965396]
 
A highly virulent variant of HIV-1 circulating in the Netherlands.
Wymant C., Bezemer D., Blanquart F., Ferretti L., Gall A., Hall M., Golubchik T., Bakker M., Ong S.H., Zhao L. et al., 2022/02/04. Science, 375 (6580) pp. 540-545. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_24048155C295]
Citrullination Was Introduced into Animals by Horizontal Gene Transfer from Cyanobacteria.
Cummings TFM, Gori K., Sanchez-Pulido L., Gavriilidis G., Moi D., Wilson A.R., Murchison E., Dessimoz C., Ponting C.P., Christophorou M.A., 2022/02/03. Molecular biology and evolution, 39 (2) pp. msab317. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_91F1C5D7CCA4]
Expanded CAG/CTG repeats resist gene silencing mediated by targeted epigenome editing.
Yang B., Borgeaud A.C., Buřičová M., Aeschbach L., Rodríguez-Lima O., Ruiz Buendía G.A., Cinesi C., Taylor A.S., Baubec T., Dion V., 2022/02/03. Human molecular genetics, 31 (3) pp. 386-398. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_7591BC227110]
 
INODE : Building an End-to-End Data Exploration System in Practice
Amer-Yahia Sihem, Koutrika Georgia, Braschler Martin, Calvanese Diego, Lanti Davide, Lücke-Tieke Hendrik, Mosca Alessandro, Mendes de Farias Tarcisio, Papadopoulos Dimitris, Patil Yogendra et al., 2022/01/31. ACM SIGMOD Record, 50 (4) pp. 23-29.
[DOI][serval:BIB_E16BD277810E]
Increased prevalence of clonal hematopoiesis of indeterminate potential amongst people living with HIV.
Bick A.G., Popadin K., Thorball C.W., Uddin M.M., Zanni M.V., Yu B., Cavassini M., Rauch A., Tarr P., Schmid P. et al., 2022/01/12. Scientific reports, 12 (1) p. 577. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_482297EB27F3]
The SwissSimilarity 2021 Web Tool: Novel Chemical Libraries and Additional Methods for an Enhanced Ligand-Based Virtual Screening Experience.
Bragina M.E., Daina A., Perez MAS, Michielin O., Zoete V., 2022/01/12. International journal of molecular sciences, 23 (2) p. 811. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_9174E37AD078]
 
A roadmap for driving CAR T cells toward the oncogenic immunopeptidome.
Irving M., Zoete V., Bassani-Sternberg M., Coukos G., 2022/01/10. Cancer cell, 40 (1) pp. 20-22. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_FF0839215AF4]
Functional Constraints on Insect Immune System Components Govern Their Evolutionary Trajectories.
Ruzzante L., Feron R., Reijnders MJMF, Thiébaut A., Waterhouse R.M., 2022/01/07. Molecular biology and evolution, 39 (1) pp. msab352. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_F28163C91FD6]
Landscape and Climatic Variations Shaped Secondary Contacts amid Barn Owls of the Western Palearctic.
Cumer T., Machado A.P., Dumont G., Bontzorlos V., Ceccherelli R., Charter M., Dichmann K., Kassinis N., Lourenço R., Manzia F. et al., 2022/01/07. Molecular biology and evolution, 39 (1) pp. msab343. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_4289DA16E19E]
SPICA: Swiss portal for immune cell analysis.
Andreatta M., David FPA, Iseli C., Guex N., Carmona S.J., 2022/01/07. Nucleic acids research, 50 (D1) pp. D1109-D1114. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_1425D341196A]
SwissBioisostere 2021: updated structural, bioactivity and physicochemical data delivered by a reshaped web interface.
Alessandro C., Antoine D., Marta A S P., Olivier M., Vincent Z., 2022/01/07. Nucleic acids research, 50 (D1) pp. D1382-D1390. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_B45F1019EA9E]
Convergent evolution of venom gland transcriptomes across Metazoa.
Zancolli G., Reijnders M., Waterhouse R.M., Robinson-Rechavi M., 2022/01/04. Proceedings of the National Academy of Sciences of the United States of America, 119 (1) pp. e2111392119. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_1D15F06B4071]
A strategic model of a host-microbe-microbe system reveals the importance of a joint host-microbe immune response to combat stress-induced gut dysbiosis.
Scheuring I., Rasmussen J.A., Bozzi D., Limborg M.T., 2022. Frontiers in microbiology, 13 p. 912806. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_1083624C0363]
A targeted amplicon sequencing panel to simultaneously identify mosquito species and Plasmodium presence across the entire Anopheles genus.
Makunin A., Korlević P., Park N., Goodwin S., Waterhouse R.M., von Wyschetzki K., Jacob C.G., Davies R., Kwiatkowski D., St Laurent B. et al., 2022/01. Molecular ecology resources, 22 (1) pp. 28-44. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_5D2C083323CE]
 
ACKR3 promotes CXCL12/CXCR4-mediated cell-to-cell-induced lymphoma migration through LTB4 production.
Antonello P., Pizzagalli D.U., Foglierini M., Melgrati S., Radice E., Thelen S., Thelen M., 2022. Frontiers in immunology, 13 p. 1067885. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_3D390AEFD3E0]
 
Bedside formulation of a personalized multi-neoantigen vaccine against mammary carcinoma.
Mohsen M.O., Speiser D.E., Michaux J., Pak H., Stevenson B.J., Vogel M., Inchakalody V.P., de Brot S., Dermime S., Coukos G. et al., 2022/01. Journal for immunotherapy of cancer, 10 (1) pp. e002927. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_C41D094CADC7]
Benchmarking metagenomics classifiers on ancient viral DNA: a simulation study.
Arizmendi Cárdenas Y.O., Neuenschwander S., Malaspinas A.S., 2022. PeerJ, 10 pp. e12784. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_F63ADE26A585]
 
CD38 Expression by Antigen-Specific CD4 T Cells Is Significantly Restored 5 Months After Treatment Initiation Independently of Sputum Bacterial Load at the Time of Tuberculosis Diagnosis.
Hiza H., Hella J., Arbués A., Sasamalo M., Misana V., Fellay J., Gagneux S., Reither K., Portevin D., 2022. Frontiers in medicine, 9 p. 821776. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_BDB41F7DEE7D]
 
Creation and unification of development and life stage ontologies for animals
Niknejad Anne, Mungall Christopher J., Osumi-Sutherland David, Robinson-Rechavi Marc, Bastian Frederic B., 2022..
[DOI][serval:BIB_A85E6647A76E]
 
Exploring m6A and m5C Epitranscriptomes upon Viral Infection: an Example with HIV.
Cristinelli S., Angelino P., Ciuffi A., 2022. Journal of visualized experiments 181. Peer-reviewed.
[DOI][Pmid][serval:BIB_5DC632351E38]
From pairwise to multiple spliced alignment.
Jammali S., Djossou A., Ouédraogo WDD, Nevers Y., Chegrane I., Ouangraoua A., 2022. Bioinformatics advances, 2 (1) pp. vbab044. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_F9ACA285ED46]
 
Methods for the Analysis of Topologically Associating Domains (TADs).
Zufferey M., Tavernari D., Ciriello G., 2022. pp. 39-59 dans Hi-C Data Analysis, Springer.
[DOI][Pmid][serval:BIB_BD884CBE0DC3]
Ni<sup>2+</sup>-Assisted Hydrolysis May Affect the Human Proteome; Filaggrin Degradation Ex Vivo as an Example of Possible Consequences.
Podobas E.I., Gutowska-Owsiak D., Moretti S., Poznański J., Kulińczak M., Grynberg M., Gruca A., Bonna A., Płonka D., Ogg G. et al., 2022. Frontiers in molecular biosciences, 9 p. 828674. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_EACE2D906304]
 
Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load.
Zhao L., Wymant C., Blanquart F., Golubchik T., Gall A., Bakker M., Bezemer D., Hall M., Ong S.H., Albert J. et al., 2022. Virus evolution, 8 (1) pp. veac022. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_DED149CC980B]
Reduced thrombogenicity of surface-treated Nitinol implants steered by altered protein adsorption.
Gegenschatz-Schmid K., Buzzi S., Grossmann J., Roschitzki B., Urbanet R., Heuberger R., Glück D., Zucker A., Ehrbar M., 2022/01/01. Acta biomaterialia, 137 pp. 331-345. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_63DA25CDF7BE]
Robust inference of expression state in bulk and single-cell RNA-Seq using curated intergenic regions
Fonseca Costa Sara S., Rosikiewicz Marta, Roux Julien, Wollbrett Julien, Bastian Frederic B., Robinson-Rechavi Marc, 2022..
[URN][DOI][serval:BIB_0D18349C923C]
Shared acute phase traits in effector and memory human CD8 T cells.
Fuertes Marraco S.A., Alpern D., Lofek S., Lourenco J., Bovay A., Maby-El Hajjami H., Delorenzi M., Deplancke B., Speiser D.E., 2022. Current research in immunology, 3 pp. 1-12. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_9E024DBBC914]
 
Structural Prediction of Peptide–MHC Binding Modes
Perez Marta A. S., Cuendet Michel A., Röhrig Ute F., Michielin Olivier, Zoete Vincent, 2022. pp. 245-282 dans Computational Peptide Science, Springer US.
[DOI][Pmid][serval:BIB_5B61FB9FCC6D]
 
Systems Biology in ELIXIR: modelling in the spotlight.
Martins Dos Santos V., Anton M., Szomolay B., Ostaszewski M., Arts I., Benfeitas R., Dominguez Del Angel V., Ferk P., Fey D., Goble C. et al., 2022. F1000Research, 11. Peer-reviewed.
[DOI][Pmid][serval:BIB_B81ECA82C7F7]
The gene regulation knowledge commons: the action area of GREEKC.
Kuiper M., Bonello J., Fernández-Breis J.T., Bucher P., Futschik M.E., Gaudet P., Kulakovskiy I.V., Licata L., Logie C., Lovering R.C. et al., 2022/01. Biochimica et biophysica acta. Gene regulatory mechanisms, 1865 (1) p. 194768. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_72A2178C27DE]
Using population-specific add-on polymorphisms to improve genotype imputation in underrepresented populations.
Xu Z.M., Rüeger S., Zwyer M., Brites D., Hiza H., Reinhard M., Rutaihwa L., Borrell S., Isihaka F., Temba H. et al., 2022/01. PLoS computational biology, 18 (1) pp. e1009628. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_3994C147BF6F]
2021
Structure and Plasticity of Indoleamine 2,3-Dioxygenase 1 (IDO1).
Röhrig U.F., Michielin O., Zoete V., 2021/12/23. Journal of medicinal chemistry, 64 (24) pp. 17690-17705. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_27218E957A69]
 
Dominant monoallelic variant in the PAK2 gene causes Knobloch syndrome type 2.
Antonarakis S.E., Holoubek A., Rapti M., Rademaker J., Meylan J., Iwaszkiewicz J., Zoete V., Wilson C., Taylor J., Ansar M. et al., 2021/12/17. Human molecular genetics, 31 (1) pp. 1-9. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_67FE6F734917]
Simultaneous estimation of bi-directional causal effects and heritable confounding from GWAS summary statistics.
Darrous L., Mounier N., Kutalik Z., 2021/12/14. Nature communications, 12 (1) p. 7274. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_E3BA5FA37823]
 
Myeloid antigen-presenting cell niches sustain antitumor T cells and license PD-1 blockade via CD28 costimulation.
Duraiswamy J., Turrini R., Minasyan A., Barras D., Crespo I., Grimm A.J., Casado J., Genolet R., Benedetti F., Wicky A. et al., 2021/12/13. Cancer cell, 39 (12) pp. 1623-1642.e20. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_4A546D8AF05A]
 
BCL-XL is crucial for progression through the adenoma-to-carcinoma sequence of colorectal cancer.
Ramesh P., Lannagan TRM, Jackstadt R., Atencia Taboada L., Lansu N., Wirapati P., van Hooff S.R., Dekker D., Pritchard J., Kirov A.B. et al., 2021/12. Cell death and differentiation, 28 (12) pp. 3282-3296. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_59DEDA1B732A]
 
Blood-brain barrier alterations in human brain tumors revealed by genome-wide transcriptomic profiling.
Schaffenrath J., Wyss T., He L., Rushing E.J., Delorenzi M., Vasella F., Regli L., Neidert M.C., Keller A., 2021/12/01. Neuro-oncology, 23 (12) pp. 2095-2106. Peer-reviewed.
[DOI][Pmid][serval:BIB_454219DF2E83]
Horizontally acquired antibacterial genes associated with adaptive radiation of ladybird beetles
Li Hao-Sen, Tang Xue-Fei, Huang Yu-Hao, Xu Ze-Yu, Chen Mei-Lan, Du Xue-Yong, Qiu Bo-Yuan, Chen Pei-Tao, Zhang Wei, Ślipiński Adam et al., 2021/12. BMC Biology, 19 (1) p. 7. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_47231D81B5D4]
Mapping the human genetic architecture of COVID-19.
COVID-19 Host Genetics Initiative, Niemi M.E.K, 2021/12. Nature, 600 (7889) pp. 472-477. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_79689A554FE8]
 
Mendelian randomization to assess causality between uromodulin, blood pressure and chronic kidney disease.
Ponte B., Sadler M.C., Olinger E., Vollenweider P., Bochud M., Padmanabhan S., Hayward C., Kutalik Z., Devuyst O., 2021/12. Kidney international, 100 (6) pp. 1282-1291. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_98D5CE7FC2F2]
Plasma triacylglycerols are biomarkers of β-cell function in mice and humans.
Sánchez-Archidona A.R., Cruciani-Guglielmacci C., Roujeau C., Wigger L., Lallement J., Denom J., Barovic M., Kassis N., Mehl F., Weitz J. et al., 2021/12. Molecular metabolism, 54 p. 101355. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_F588B3D1D116]
The power of genetic diversity in genome-wide association studies of lipids.
Graham S.E., Clarke S.L., Wu K.H., Kanoni S., Zajac GJM, Ramdas S., Surakka I., Ntalla I., Vedantam S., Winkler T.W. et al., 2021/12. Nature, 600 (7890) pp. 675-679. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_E92E8C36729A]
 
Turning tumors from cold to inflamed to improve immunotherapy response.
Gerard C.L., Delyon J., Wicky A., Homicsko K., Cuendet M.A., Michielin O., 2021/12. Cancer treatment reviews, 101 p. 102227. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_4AB33FCA1873]
Lef1 restricts ectopic crypt formation and tumor cell growth in intestinal adenomas.
Heino S., Fang S., Lähde M., Högström J., Nassiri S., Campbell A., Flanagan D., Raven A., Hodder M., Nasreddin N. et al., 2021/11/19. Science advances, 7 (47) pp. eabj0512. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_4CC88CEB1BCE]
ASB2 is a direct target of FLI1 that sustains NF-κB pathway activation in germinal center-derived diffuse large B-cell lymphoma.
Sartori G., Napoli S., Cascione L., Chung EYL, Priebe V., Arribas A.J., Mensah A.A., Dall'Angelo M., Falzarano C., Barnabei L. et al., 2021/11/11. Journal of experimental & clinical cancer research, 40 (1) p. 357. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_EA8A538A1370]
GA4GH: International policies and standards for data sharing across genomic research and healthcare.
Rehm H.L., Page AJH, Smith L., Adams J.B., Alterovitz G., Babb L.J., Barkley M.P., Baudis M., Beauvais MJS, Beck T. et al., 2021/11/10. Cell genomics, 1 (2) p. 100029. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_0C82FBDFD245]
 
A supernumerary "B-sex" chromosome drives male sex determination in the Pachón cavefish, Astyanax mexicanus.
Imarazene B., Du K., Beille S., Jouanno E., Feron R., Pan Q., Torres-Paz J., Lopez-Roques C., Castinel A., Gil L. et al., 2021/11/08. Current biology, 31 (21) pp. 4800-4809.e9. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_1FE6D1A0EC8B]
Mark’s Ending in the Digital Age : Paratextual Evidence, New Findings and Transcription Challenges
Monier Mina, 2021/11/02. Postscripts: The Journal of Sacred Texts and Contemporary Worlds, 12 (1) pp. 75-97. Peer-reviewed.
[URN][DOI][serval:BIB_F1A56F977830]
 
Distinct Molecular Signatures of Clinical Clusters in People With Type 2 Diabetes: An IMI-RHAPSODY Study.
Slieker R.C., Donnelly L.A., Fitipaldi H., Bouland G.A., Giordano G.N., Åkerlund M., Gerl M.J., Ahlqvist E., Ali A., Dragan I. et al., 2021/11. Diabetes, 70 (11) pp. 2683-2693. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_A3ADFE199CED]
Viral genome wide association study identifies novel hepatitis C virus polymorphisms associated with sofosbuvir treatment failure.
Smith D.A., Fernandez-Antunez C., Magri A., Bowden R., Chaturvedi N., Fellay J., McLauchlan J., Foster G.R., Irving W.L., STOP-HCV Consortium et al., 2021/10/20. Nature communications, 12 (1) p. 6105. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_1FACB1601518]
Management of transthyretin amyloidosis.
Condoluci A., Théaudin M., Schwotzer R., Pazhenkottil A.P., Arosio P., Averaimo M., Bacher U., Bode P., Cavalli A., Dirnhofer S. et al., 2021/10/11. Swiss medical weekly, 151 pp. w30053. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_1ADB98786F3C]
Accessing scientific data through knowledge graphs with Ontop.
Calvanese D., Lanti D., Mendes De Farias T., Mosca A., Xiao G., 2021/10/08. Patterns, 2 (10) p. 100346. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_962C4367A194]
 
Telomere Length, Traditional Risk Factors, Factors Related to Human Immunodeficiency Virus (HIV) and Coronary Artery Disease Events in Swiss Persons Living With HIV.
Engel T., Raffenberg M., Schoepf I.C., Kootstra N.A., Reiss P., Thorball C.W., Hasse B., Hirzel C., Wissel K., Roth J.A. et al., 2021/10/05. Clinical infectious diseases, 73 (7) pp. e2070-e2076. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_43BB2F3F0EDE]
 
Cancer Cells Retrace a Stepwise Differentiation Program during Malignant Progression.
Saghafinia S., Homicsko K., Di Domenico A., Wullschleger S., Perren A., Marinoni I., Ciriello G., Michael I.P., Hanahan D., 2021/10. Cancer discovery, 11 (10) pp. 2638-2657. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_E3BABADE6621]
 
Exclusion of the fittest predicts microbial community diversity in fluctuating environments.
Shibasaki S., Mobilia M., Mitri S., 2021/10. Journal of the Royal Society, Interface, 18 (183) p. 20210613. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_31636AF1B4BD]
 
FGFR2 Extracellular Domain In-Frame Deletions Are Therapeutically Targetable Genomic Alterations That Function as Oncogenic Drivers in Cholangiocarcinoma.
Cleary J.M., Raghavan S., Wu Q., Li Y.Y., Spurr L.F., Gupta H.V., Rubinson D.A., Fetter I.J., Hornick J.L., Nowak J.A. et al., 2021/10. Cancer discovery, 11 (10) pp. 2488-2505. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_794632510938]
HIV-1 and human genetic variation.
McLaren P.J., Fellay J., 2021/10. Nature reviews. Genetics, 22 (10) pp. 645-657. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_16DF9AACD3B9]
 
Immunological lessons from genome-wide association studies of infections.
Thorball C.W., Fellay J., Borghesi A., 2021/10. Current opinion in immunology, 72 pp. 87-93. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_B2F8837F7024]
OMAmer: tree-driven and alignment-free protein assignment to subfamilies outperforms closest sequence approaches.
Rossier V., Warwick Vesztrocy A., Robinson-Rechavi M., Dessimoz C., 2021/09/29. Bioinformatics, 37 (18) pp. 2866-2873. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_E9D32F404F19]
 
Species ecology explains the spatial components of genetic diversity in tropical reef fishes.
Donati GFA, Zemp N., Manel S., Poirier M., Claverie T., Ferraton F., Gaboriau T., Govinden R., Hagen O., Ibrahim S. et al., 2021/09/29. Proceedings. Biological sciences, 288 (1959) p. 20211574. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_6C9EE8F3FD06]
Differentially expressed genes reflect disease-induced rather than disease-causing changes in the transcriptome.
Porcu E., Sadler M.C., Lepik K., Auwerx C., Wood A.R., Weihs A., Sleiman MSB, Ribeiro D.M., Bandinelli S., Tanaka T. et al., 2021/09/24. Nature communications, 12 (1) p. 5647. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_253FEBED3C3F]
Haplotype divergence supports long-term asexuality in the oribatid mite Oppiella nova.
Brandt A., Tran Van P., Bluhm C., Anselmetti Y., Dumas Z., Figuet E., François C.M., Galtier N., Heimburger B., Jaron K.S. et al., 2021/09/21. Proceedings of the National Academy of Sciences of the United States of America, 118 (38) pp. e2101485118. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_A92AB05DA145]
 
Novel Approach Combining Transcriptional and Evolutionary Signatures to Identify New Multiciliation Genes.
Defosset A., Merlat D., Poidevin L., Nevers Y., Kress A., Poch O., Lecompte O., 2021/09/21. Genes, 12 (9) p. 1452. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_F7D3952B2536]
Circular RNA repertoires are associated with evolutionarily young transposable elements.
Gruhl F., Janich P., Kaessmann H., Gatfield D., 2021/09/20. eLife, 10 pp. e67991. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_81B4CC087DBB]
 
Specific Protein-Membrane Interactions Promote Packaging of Metallo-β-Lactamases into Outer Membrane Vesicles.
López C., Prunotto A., Bahr G., Bonomo R.A., González L.J., Dal Peraro M., Vila A.J., 2021/09/17. Antimicrobial agents and chemotherapy, 65 (10) pp. e0050721. Peer-reviewed.
[DOI][Pmid][serval:BIB_44A995F8E20C]
 
Whole Blood Transcriptome Profiling Identifies DNA Replication and Cell Cycle Regulation as Early Marker of Response to Anti-PD-1 in Patients with Urothelial Cancer.
van Wilpe S., Wosika V., Ciarloni L., Hosseinian Ehrensberger S., Jeitziner R., Angelino P., Duiveman-de Boer T., Koornstra RHT, de Vries IJM, Gerritsen W.R. et al., 2021/09/17. Cancers, 13 (18) p. 4660. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_9AE4A9E5C2BC]
Targeting OLFML3 in Colorectal Cancer Suppresses Tumor Growth and Angiogenesis, and Increases the Efficacy of Anti-PD1 Based Immunotherapy.
Stalin J., Imhof B.A., Coquoz O., Jeitziner R., Hammel P., McKee T.A., Jemelin S., Poittevin M., Pocard M., Matthes T. et al., 2021/09/15. Cancers, 13 (18) p. 4625. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_64B45ACEAD1A]
Composite trait Mendelian randomization reveals distinct metabolic and lifestyle consequences of differences in body shape.
Sulc J., Sonrel A., Mounier N., Auwerx C., Marouli E., Darrous L., Draganski B., Kilpeläinen T.O., Joshi P., Loos RJF et al., 2021/09/13. Communications biology, 4 (1) p. 1064. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_57C949AB27A1]
 
Influenza A viruses balance ER stress with host protein synthesis shutoff.
Mazel-Sanchez B., Iwaszkiewicz J., Bonifacio JPP, Silva F., Niu C., Strohmeier S., Eletto D., Krammer F., Tan G., Zoete V. et al., 2021/09/07. Proceedings of the National Academy of Sciences of the United States of America, 118 (36) pp. e2024681118. Peer-reviewed.
[DOI][Pmid][serval:BIB_E216ED6F6864]
PD-1<sup>+</sup> Tcf1<sup>+</sup> CD8<sup>+</sup> T cells from established chronic infection can form memory while retaining a stableimprint of persistent antigen exposure.
Charmoy M., Wyss T., Delorenzi M., Held W., 2021/09/07. Cell reports, 36 (10) p. 109672. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_2783DEBAC783]
Large-scale cis- and trans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression.
Võsa U., Claringbould A., Westra H.J., Bonder M.J., Deelen P., Zeng B., Kirsten H., Saha A., Kreuzhuber R., Yazar S. et al., 2021/09. Nature genetics, 53 (9) pp. 1300-1310. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_9462F2AB5F22]
 
Replication and cross-validation of type 2 diabetes subtypes based on clinical variables: an IMI-RHAPSODY study.
Slieker R.C., Donnelly L.A., Fitipaldi H., Bouland G.A., Giordano G.N., Åkerlund M., Gerl M.J., Ahlqvist E., Ali A., Dragan I. et al., 2021/09. Diabetologia, 64 (9) pp. 1982-1989. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_05148A44E888]
 
Revealing NOTCH-dependencies in synaptic targets associated with Alzheimer's disease.
Perna A., Marathe S., Dreos R., Falquet L., Akarsu Egger H., Auber L.A., 2021/09. Molecular and cellular neurosciences, 115 p. 103657. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_2CABA49354C2]
The bowfin genome illuminates the developmental evolution of ray-finned fishes.
Thompson A.W., Hawkins M.B., Parey E., Wcisel D.J., Ota T., Kawasaki K., Funk E., Losilla M., Fitch O.E., Pan Q. et al., 2021/09. Nature genetics, 53 (9) pp. 1373-1384. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_96D8E27F70AD]
Autoantibodies neutralizing type I IFNs are present in ~4% of uninfected individuals over 70 years old and account for ~20% of COVID-19 deaths.
Bastard P., Gervais A., Le Voyer T., Rosain J., Philippot Q., Manry J., Michailidis E., Hoffmann H.H., Eto S., Garcia-Prat M. et al., 2021/08/19. Science immunology, 6 (62) pp. eabl4340. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_15CBA872BCCD]
The molecular basis, genetic control and pleiotropic effects of local gene co-expression.
Ribeiro D.M., Rubinacci S., Ramisch A., Hofmeister R.J., Dermitzakis E.T., Delaneau O., 2021/08/10. Nature communications, 12 (1) p. 4842. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_5AA3BA80411A]
 
Inflammatory metabolic profile of South African patients with prostate cancer.
Cacciatore S., Wium M., Licari C., Ajayi-Smith A., Masieri L., Anderson C., Salukazana A.S., Kaestner L., Carini M., Carbone G.M. et al., 2021/08/03. Cancer & metabolism, 9 (1) p. 29. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_AE197D4C04FB]
 
Systematic assessment of gene co-regulation within chromatin domains determines differentially active domains across human cancers.
Zufferey M., Liu Y., Tavernari D., Mina M., Ciriello G., 2021/08/03. Genome biology, 22 (1) p. 218. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_0C0A83ACB23F]
 
Genetic insights into biological mechanisms governing human ovarian ageing.
Ruth K.S., Day F.R., Hussain J., Martínez-Marchal A., Aiken C.E., Azad A., Thompson D.J., Knoblochova L., Abe H., Tarry-Adkins J.L. et al., 2021/08. Nature, 596 (7872) pp. 393-397. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_AEC34ED6E894]
Genetic variation near CXCL12 is associated with susceptibility to HIV-related non-Hodgkin lymphoma.
Thorball C.W., Oudot-Mellakh T., Ehsan N., Hammer C., Santoni F.A., Niay J., Costagliola D., Goujard C., Meyer L., Wang S.S. et al., 2021/08/01. Haematologica, 106 (8) pp. 2233-2241. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_B72746EA3CA7]
Olfactory receptor-dependent receptor repression in Drosophila.
Mika K., Cruchet S., Chai P.C., Prieto-Godino L.L., Auer T.O., Pradervand S., Benton R., 2021/08. Science advances, 7 (32) pp. eabe3745. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_9CEC0BBE9EE9]
 
PRF1 mutation alters immune system activation, inflammation, and risk of autoimmunity.
Sidore C., Orrù V., Cocco E., Steri M., Inshaw J.R., Pitzalis M., Mulas A., McGurnaghan S., Frau J., Porcu E. et al., 2021/08. Multiple sclerosis, 27 (9) pp. 1332-1340. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_36EAC4B40963]
 
VEGFR-2 redirected CAR-T cells are functionally impaired by soluble VEGF-A competition for receptor binding.
Lanitis E., Kosti P., Ronet C., Cribioli E., Rota G., Spill A., Reichenbach P., Zoete V., Dangaj Laniti D., Coukos G. et al., 2021/08. Journal for immunotherapy of cancer, 9 (8) pp. e002151. Peer-reviewed.
[DOI][Pmid][serval:BIB_3B098C62EF15]
Ten Years of Collaborative Progress in the Quest for Orthologs.
Linard B., Ebersberger I., McGlynn S.E., Glover N., Mochizuki T., Patricio M., Lecompte O., Nevers Y., Thomas P.D., Gabaldón T. et al., 2021/07/29. Molecular biology and evolution, 38 (8) pp. 3033-3045. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_69FF3D639B70]
Characterization of the blood-brain barrier in genetically diverse laboratory mouse strains.
Schaffenrath J., Huang S.F., Wyss T., Delorenzi M., Keller A., 2021/07/28. Fluids and barriers of the CNS, 18 (1) p. 34. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_99330E3BC31E]
HIV Modifies the m6A and m5C Epitranscriptomic Landscape of the Host Cell
Cristinelli Sara, Angelino Paolo, Janowczyk Andrew, Delorenzi Mauro, Ciuffi Angela, 2021/07/21. Frontiers in Virology, 1. Peer-reviewed.
[URN][DOI][serval:BIB_4F8E70273355]
Cell-autonomous inflammation of BRCA1-deficient ovarian cancers drives both tumor-intrinsic immunoreactivity and immune resistance via STING.
Bruand M., Barras D., Mina M., Ghisoni E., Morotti M., Lanitis E., Fahr N., Desbuisson M., Grimm A., Zhang H. et al., 2021/07/20. Cell reports, 36 (3) p. 109412. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_745449157CA6]
 
CD40 Agonist Targeted to Fibroblast Activation Protein α Synergizes with Radiotherapy in Murine HPV-Positive Head and Neck Tumors.
Labiano S., Roh V., Godfroid C., Hiou-Feige A., Romero J., Sum E., Rapp M., Boivin G., Wyss T., Simon C. et al., 2021/07/15. Clinical cancer research, 27 (14) pp. 4054-4065. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_01B309C22867]
 
ISMB/ECCB 2021 proceedings.
Dessimoz C., Przytycka T.M., 2021/07/12. Bioinformatics, 37 (Suppl_1) pp. i7-i8. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_896DE61ACD8B]
Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data
Sima Ana Claudia, Mendes de Farias Tarcisio, Anisimova Maria, Dessimoz Christophe, Robinson-Rechavi Marc, Zbinden Erich, Stockinger Kurt, 2021/07/06. 33rd International Conference on Scientific and Statistical Database Management. Peer-reviewed.
[URN][DOI][serval:BIB_A6616600154D]
 
Acquired resistance to anti-MAPK targeted therapy confers an immune-evasive tumor microenvironment and cross-resistance to immunotherapy in melanoma.
Haas L., Elewaut A., Gerard C.L., Umkehrer C., Leiendecker L., Pedersen M., Krecioch I., Hoffmann D., Novatchkova M., Kuttke M. et al., 2021/07. Nature cancer, 2 (7) pp. 693-708. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_630A38C698EC]
FOXC2 controls adult lymphatic endothelial specialization, function, and gut lymphatic barrier preventing multiorgan failure.
González-Loyola A., Bovay E., Kim J., Lozano T.W., Sabine A., Renevey F., Arroz-Madeira S., Rapin A., Wypych T.P., Rota G. et al., 2021/07. Science advances, 7 (29) pp. eabf4335. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_3852082D8787]
 
Multi-omics profiling of living human pancreatic islet donors reveals heterogeneous beta cell trajectories towards type 2 diabetes.
Wigger L., Barovic M., Brunner A.D., Marzetta F., Schöniger E., Mehl F., Kipke N., Friedland D., Burdet F., Kessler C. et al., 2021/07. Nature metabolism, 3 (7) pp. 1017-1031. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_CE60701C01FB]
RADSex: A computational workflow to study sex determination using restriction site-associated DNA sequencing data.
Feron R., Pan Q., Wen M., Imarazene B., Jouanno E., Anderson J., Herpin A., Journot L., Parrinello H., Klopp C. et al., 2021/07. Molecular ecology resources, 21 (5) pp. 1715-1731. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_F51E38DEE28F]
Socio-economic position as a moderator of cardiometabolic outcomes in patients receiving psychotropic treatment associated with weight gain: results from a prospective 12-month inception cohort study and a large population-based cohort.
Dubath C., Gholam-Rezaee M., Sjaarda J., Levier A., Saigi-Morgui N., Delacrétaz A., Glatard A., Panczak R., Correll C.U., Solida A. et al., 2021/06/26. Translational psychiatry, 11 (1) p. 360. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_4391765D562C]
The proteolytic landscape of cells exposed to non-lethal stresses is shaped by executioner caspases.
Conde-Rubio MDC, Mylonas R., Widmann C., 2021/06/19. Cell death discovery, 7 (1) p. 164. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_DEF69837F539]
Machine learning analyses of antibody somatic mutations predict immunoglobulin light chain toxicity.
Garofalo M., Piccoli L., Romeo M., Barzago M.M., Ravasio S., Foglierini M., Matkovic M., Sgrignani J., De Gasparo R., Prunotto M. et al., 2021/06/10. Nature communications, 12 (1) p. 3532. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_8025CE5AB3D3]
Homoeolog Inference Methods Requiring Bidirectional Best Hits or Synteny Miss Many Pairs.
Glover N., Sheppard S., Dessimoz C., 2021/06/08. Genome biology and evolution, 13 (6) pp. evab077. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_9739D4F55417]
 
Correction to 'Integration of single-cell datasets reveals novel transcriptomic signatures of β-cells in human type 2 diabetes'.
Bosi E., Marselli L., De Luca C., Suleiman M., Tesi M., Ibberson M., Eizirik D.L., Cnop M., Marchetti P., 2021/06. NAR genomics and bioinformatics, 3 (2) pp. lqab053. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_00B16B5B1C30]
Gene-educational attainment interactions in a multi-ancestry genome-wide meta-analysis identify novel blood pressure loci.
de Las Fuentes L., Sung Y.J., Noordam R., Winkler T., Feitosa M.F., Schwander K., Bentley A.R., Brown M.R., Guo X., Manning A. et al., 2021/06. Molecular psychiatry, 26 (6) pp. 2111-2125. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_7C997FACA438]
Nongenetic Evolution Drives Lung Adenocarcinoma Spatial Heterogeneity and Progression.
Tavernari D., Battistello E., Dheilly E., Petruzzella A.S., Mina M., Sordet-Dessimoz J., Peters S., Krueger T., Gfeller D., Riggi N. et al., 2021/06. Cancer discovery, 11 (6) pp. 1490-1507. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_F6D4BAEDCE1E]
The trans-ancestral genomic architecture of glycemic traits.
Chen J., Spracklen C.N., Marenne G., Varshney A., Corbin L.J., Luan J., Willems S.M., Wu Y., Zhang X., Horikoshi M. et al., 2021/06. Nature genetics, 53 (6) pp. 840-860. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_53C688CA509F]
Interpretation of T cell states from single-cell transcriptomics data using reference atlases.
Andreatta M., Corria-Osorio J., Müller S., Cubas R., Coukos G., Carmona S.J., 2021/05/20. Nature communications, 12 (1) p. 2965. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_BE1D257DF142]
Unusual mode of dimerization of retinitis pigmentosa-associated F220C rhodopsin.
Khelashvili G., Pillai A.N., Lee J., Pandey K., Payne A.M., Siegel Z., Cuendet M.A., Lewis T.R., Arshavsky V.Y., Broichhagen J. et al., 2021/05/18. Scientific reports, 11 (1) p. 10536. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_2C51FDDAB23D]
The genomic history of the Aegean palatial civilizations.
Clemente F., Unterländer M., Dolgova O., Amorim CEG, Coroado-Santos F., Neuenschwander S., Ganiatsou E., Cruz Dávalos D.I., Anchieri L., Michaud F. et al., 2021/05/13. Cell, 184 (10) pp. 2565-2586.e21. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_114B1DCAE1B5]
Systematic inference and comparison of multi-scale chromatin sub-compartments connects spatial organization to cell phenotypes.
Liu Y., Nanni L., Sungalee S., Zufferey M., Tavernari D., Mina M., Ceri S., Oricchio E., Ciriello G., 2021/05/10. Nature communications, 12 (1) p. 2439. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_95E06884F11E]
 
Variants in the degron of AFF3 are associated with intellectual disability, mesomelic dysplasia, horseshoe kidney, and epileptic encephalopathy.
Voisin N., Schnur R.E., Douzgou S., Hiatt S.M., Rustad C.F., Brown N.J., Earl D.L., Keren B., Levchenko O., Geuer S. et al., 2021/05/06. American journal of human genetics, 108 (5) pp. 857-873. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_A61CD673B3D6]
 
Causal Inference Methods to Integrate Omics and Complex Traits.
Porcu E., Sjaarda J., Lepik K., Carmeli C., Darrous L., Sulc J., Mounier N., Kutalik Z., 2021/05/03. Cold Spring Harbor perspectives in medicine, 11 (5) pp. a040493. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_FB7006C4092B]
 
GLUT1 Expression in Tumor-Associated Neutrophils Promotes Lung Cancer Growth and Resistance to Radiotherapy.
Ancey P.B., Contat C., Boivin G., Sabatino S., Pascual J., Zangger N., Perentes J.Y., Peters S., Abel E.D., Kirsch D.G. et al., 2021/05/01. Cancer research, 81 (9) pp. 2345-2357. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_A171D8D09919]
 
Histone acetylation dynamics modulates chromatin conformation and allele-specific interactions at oncogenic loci.
Sungalee S., Liu Y., Lambuta R.A., Katanayeva N., Donaldson Collier M., Tavernari D., Roulland S., Ciriello G., Oricchio E., 2021/05. Nature genetics, 53 (5) pp. 650-662. Peer-reviewed.
[DOI][Pmid][serval:BIB_D9CCA98B8DC1]
 
Late-onset and long-lasting immune-related adverse events from immune checkpoint-inhibitors: An overlooked aspect in immunotherapy.
Ghisoni E., Wicky A., Bouchaab H., Imbimbo M., Delyon J., Gautron Moura B., Gérard C.L., Latifyan S., Özdemir B.C., Caikovski M. et al., 2021/05. European journal of cancer, 149 pp. 153-164. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_4791AD7F437D]
Genome-wide association study of circulating interleukin 6 levels identifies novel loci.
Ahluwalia T.S., Prins B.P., Abdollahi M., Armstrong N.J., Aslibekyan S., Bain L., Jefferis B., Baumert J., Beekman M., Ben-Shlomo Y. et al., 2021/04/27. Human molecular genetics, 30 (5) pp. 393-409. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_DFC20881CC51]
Genomic architecture and prediction of censored time-to-event phenotypes with a Bayesian genome-wide analysis.
Ojavee S.E., Kousathanas A., Trejo Banos D., Orliac E.J., Patxot M., Läll K., Mägi R., Fischer K., Kutalik Z., Robinson M.R., 2021/04/20. Nature communications, 12 (1) p. 2337. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_DD352C34FFE4]
First annotated draft genomes of nonmarine ostracods (Ostracoda, Crustacea) with different reproductive modes.
Tran Van P., Anselmetti Y., Bast J., Dumas Z., Galtier N., Jaron K.S., Martens K., Parker D.J., Robinson-Rechavi M., Schwander T. et al., 2021/04/15. G3, 11 (4) pp. jkab043. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_19612ACE0AC4]
Special Care Is Needed in Applying Phylogenetic Comparative Methods to Gene Trees with Speciation and Duplication Nodes.
Begum T., Robinson-Rechavi M., 2021/04/13. Molecular biology and evolution, 38 (4) pp. 1614-1626. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_C4CAC6CE8CD6]
The Minimum Information about a Molecular Interaction CAusal STatement (MI2CAST).
Touré V., Vercruysse S., Acencio M.L., Lovering R.C., Orchard S., Bradley G., Casals-Casas C., Chaouiya C., Del-Toro N., Flobak Å. et al., 2021/04/05. Bioinformatics, 36 (24) pp. 5712-5718. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_4DF8A0977CCD]
 
70-gene signature as an aid for treatment decisions in early breast cancer: updated results of the phase 3 randomised MINDACT trial with an exploratory analysis by age.
Piccart M., van 't Veer L.J., Poncet C., Lopes Cardozo JMN, Delaloge S., Pierga J.Y., Vuylsteke P., Brain E., Vrijaldenhoven S., Neijenhuis P.A. et al., 2021/04. The Lancet. Oncology, 22 (4) pp. 476-488. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_AF08B9212168]
 
Sexually dimorphic roles for the type 2 diabetes-associated C2cd4b gene in murine glucose homeostasis.
Mousavy Gharavy S.N., Owen B.M., Millership S.J., Chabosseau P., Pizza G., Martinez-Sanchez A., Tasoez E., Georgiadou E., Hu M., Fine NHF et al., 2021/04. Diabetologia, 64 (4) pp. 850-864. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_0C8F018AB6C9]
 
Structural basis of malaria RIFIN binding by LILRB1-containing antibodies.
Chen Y., Xu K., Piccoli L., Foglierini M., Tan J., Jin W., Gorman J., Tsybovsky Y., Zhang B., Traore B. et al., 2021/04. Nature, 592 (7855) pp. 639-643. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_9B1DD37B03E0]
 
Probing the Conformational Dynamics of Affinity-Enhanced T Cell Receptor Variants upon Binding the Peptide-Bound Major Histocompatibility Complex by Hydrogen/Deuterium Exchange Mass Spectrometry.
Merkle P.S., Trabjerg E., Hongjian S., Ferber M., Cuendet M.A., Jørgensen TJD, Luescher I., Irving M., Zoete V., Michielin O. et al., 2021/03/23. Biochemistry, 60 (11) pp. 859-872. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_CF7649E47A67]
The impact of structural bioinformatics tools and resources on SARS-CoV-2 research and therapeutic strategies.
Waman V.P., Sen N., Varadi M., Daina A., Wodak S.J., Zoete V., Velankar S., Orengo C., 2021/03/22. Briefings in bioinformatics, 22 (2) pp. 742-768. Peer-reviewed.
[URN][DOI][Pmid][serval:BIB_C745D183BB85]
Swiss-PO: a new tool to analyze the impact of mutations on protein three-dimensional structures for precision oncology.
Krebs F.S., Zoete V., Trottet M., Pouchon T., Bovigny C., Michielin O., 2021/03/18. NPJ precision oncology, 5 (1) p. 19. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_A929D45E3DA0]
Triangulating evidence from longitudinal and Mendelian randomization studies of metabolomic biomarkers for type 2 diabetes.
Porcu E., Gilardi F., Darrous L., Yengo L., Bararpour N., Gasser M., Marques-Vidal P., Froguel P., Waeber G., Thomas A. et al., 2021/03/18. Scientific reports, 11 (1) p. 6197. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_31003871533C]
Kinetic analysis of ASIC1a delineates conformational signaling from proton-sensing domains to the channel gate.
Vullo S., Ambrosio N., Kucera J.P., Bignucolo O., Kellenberger S., 2021/03/17. eLife, 10 pp. e66488. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_E64FD4132061]
 
Genomic Features of Parthenogenetic Animals.
Jaron K.S., Bast J., Nowell R.W., Ranallo-Benavidez T.R., Robinson-Rechavi M., Schwander T., 2021/03/12. The Journal of heredity, 112 (1) pp. 19-33. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_E1A133CAFF7A]
The genome of the stable fly, Stomoxys calcitrans, reveals potential mechanisms underlying reproduction, host interactions, and novel targets for pest control.
Olafson P.U., Aksoy S., Attardo G.M., Buckmeier G., Chen X., Coates C.J., Davis M., Dykema J., Emrich S.J., Friedrich M. et al., 2021/03/10. BMC biology, 19 (1) p. 41. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_FFD9B63A0AC9]
 
The analysis of GSTA1 promoter genetic and functional diversity of human populations.
Mlakar V., Curtis P.H., Armengol M., Ythier V., Dupanloup I., Hassine K.B., Lesne L., Murr R., Mlakar S.J., Nava T. et al., 2021/03/03. Scientific reports, 11 (1) p. 5038. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_AB262951A9C2]
GDSL-domain proteins have key roles in suberin polymerization and degradation.
Ursache R., De Jesus Vieira Teixeira C., Dénervaud Tendon V., Gully K., De Bellis D., Schmid-Siegert E., Grube Andersen T., Shekhar V., Calderon S., Pradervand S. et al., 2021/03. Nature plants, 7 (3) pp. 353-364. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_30FC7AE0DD86]
Gene Duplication and Gain in the Trematode Atriophallophorus winterbourni Contributes to Adaptation to Parasitism.
Zajac N., Zoller S., Seppälä K., Moi D., Dessimoz C., Jokela J., Hartikainen H., Glover N., 2021/03/01. Genome biology and evolution, 13 (3) pp. evab010. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_37EBF9C1AD84]
 
Want to track pandemic variants faster? Fix the bioinformatics bottleneck.
Hodcroft E.B., De Maio N., Lanfear R., MacCannell D.R., Minh B.Q., Schmidt H.A., Stamatakis A., Goldman N., Dessimoz C., 2021/03. Nature, 591 (7848) pp. 30-33.
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Azole-Based Indoleamine 2,3-Dioxygenase 1 (IDO1) Inhibitors.
Röhrig U.F., Majjigapu S.R., Reynaud A., Pojer F., Dilek N., Reichenbach P., Ascencao K., Irving M., Coukos G., Vogel P. et al., 2021/02/25. Journal of medicinal chemistry, 64 (4) pp. 2205-2227. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_3FC8F8F2B6EC]
The influence of human genetic variation on Epstein-Barr virus sequence diversity.
Rüeger S., Hammer C., Loetscher A., McLaren P.J., Lawless D., Naret O., Khanna N., Bernasconi E., Cavassini M., Günthard H.F. et al., 2021/02/25. Scientific reports, 11 (1) p. 4586. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_0350B2DA3BE2]
Prediction of neo-epitope immunogenicity reveals TCR recognition determinants and provides insight into immunoediting.
Schmidt J., Smith A.R., Magnin M., Racle J., Devlin J.R., Bobisse S., Cesbron J., Bonnet V., Carmona S.J., Huber F. et al., 2021/02/16. Cell reports. Medicine, 2 (2) p. 100194. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_9AA90BD897A9]
CTCF loss has limited effects on global genome architecture in Drosophila despite critical regulatory functions.
Kaushal A., Mohana G., Dorier J., Özdemir I., Omer A., Cousin P., Semenova A., Taschner M., Dergai O., Marzetta F. et al., 2021/02/12. Nature communications, 12 (1) p. 1011. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_6E8BCA9FDAE9]
 
Democratization of fungal highway columns as a tool to investigate bacteria associated with soil fungi.
Junier P., Cailleau G., Palmieri I., Vallotton C., Trautschold O.C., Junier T., Paul C., Bregnard D., Palmieri F., Estoppey A. et al., 2021/02/11. FEMS microbiology ecology, 97 (2) pp. fiab003. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_5B9104AFFAAF]
Gene regulation contributes to explain the impact of early life socioeconomic disadvantage on adult inflammatory levels in two cohort studies.
Carmeli C., Kutalik Z., Mishra P.P., Porcu E., Delpierre C., Delaneau O., Kelly-Irving M., Bochud M., Dhayat N.A., Ponte B. et al., 2021/02/04. Scientific reports, 11 (1) p. 3100. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_39953DE1C692]
Obesity and atypical depression symptoms: findings from Mendelian randomization in two European cohorts.
Pistis G., Milaneschi Y., Vandeleur C.L., Lasserre A.M., Penninx BWJH, Lamers F., Boomsma D.I., Hottenga J.J., Marques-Vidal P., Vollenweider P. et al., 2021/02/04. Translational psychiatry, 11 (1) p. 96. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_17EF0CA720D3]
 
Chromatin 3D interaction analysis of the STARD10 locus unveils FCHSD2 as a regulator of insulin secretion.
Hu M., Cebola I., Carrat G., Jiang S., Nawaz S., Khamis A., Canouil M., Froguel P., Schulte A., Solimena M. et al., 2021/02/02. Cell reports, 34 (5) p. 108703. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_2303B8273031]
Inflammatory B cells correlate with failure to checkpoint blockade in melanoma patients.
de Jonge K., Tillé L., Lourenco J., Maby-El Hajjami H., Nassiri S., Racle J., Gfeller D., Delorenzi M., Verdeil G., Baumgaertner P. et al., 2021/02/02. Oncoimmunology, 10 (1) p. 1873585. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_A6249CF0D69F]
 
Author Correction: Genome-wide association study of intracranial aneurysms identifies 17 risk loci and genetic overlap with clinical risk factors.
Bakker M.K., van der Spek RAA, van Rheenen W., Morel S., Bourcier R., Hostettler I.C., Alg V.S., van Eijk K.R., Koido M., Akiyama M. et al., 2021/02. Nature genetics, 53 (2) p. 254. Peer-reviewed.
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Discriminating Dietary Responses by Combining Transcriptomics and Metabolomics Data in Nutrition Intervention Studies.
Burton-Pimentel K.J., Pimentel G., Hughes M., Michielsen C.C., Fatima A., Vionnet N., Afman L.A., Roche H.M., Brennan L., Ibberson M. et al., 2021/02. Molecular nutrition & food research, 65 (4) pp. e2000647. Peer-reviewed.
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Gain of HIF1 Activity and Loss of miRNA let-7d Promote Breast Cancer Metastasis to the Brain via the PDGF/PDGFR Axis.
Wyss C.B., Duffey N., Peyvandi S., Barras D., Martinez Usatorre A., Coquoz O., Romero P., Delorenzi M., Lorusso G., Rüegg C., 2021/02/01. Cancer research, 81 (3) pp. 594-605. Peer-reviewed.
[DOI][WoS][Pmid][serval:BIB_96CE02E1BF45]
Microglia control small vessel calcification via TREM2.
Zarb Y., Sridhar S., Nassiri S., Utz S.G., Schaffenrath J., Maheshwari U., Rushing E.J., Nilsson KPR, Delorenzi M., Colonna M. et al., 2021/02. Science advances, 7 (9) pp. 135-145. Peer-reviewed.
[URN][DOI][WoS][Pmid][serval:BIB_C64510F66413]
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