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Items: 1 to 20 of 183

1.

Differential regulation of RNA polymerase III genes during liver regeneration.

Yeganeh M, Praz V, Carmeli C, Villeneuve D, Rib L, Guex N, Herr W, Delorenzi M, Hernandez N; CycliX consortium .

Nucleic Acids Res. 2018 Dec 29. doi: 10.1093/nar/gky1282. [Epub ahead of print]

PMID:
30597109
2.

Improving the quality and workflow of bacterial genome sequencing and analysis: paving the way for a Switzerland-wide molecular epidemiological surveillance platform.

Egli A, Blanc DS, Greub G, Keller PM, Lazarevic V, Lebrand A, Leib S, Neher RA, Perreten V, Ramette A, Schrenzel J, Stephan R, Wagner K, Wuethrich D, Xenarios I.

Swiss Med Wkly. 2018 Dec 15;148:w14693. doi: 10.4414/smw.2018.14693. eCollection 2018 Dec 3.

3.

Genome-wide identification of microRNAs regulating the human prion protein.

Pease D, Scheckel C, Schaper E, Eckhardt V, Emmenegger M, Xenarios I, Aguzzi A.

Brain Pathol. 2018 Nov 19. doi: 10.1111/bpa.12679. [Epub ahead of print]

PMID:
30451334
4.

Updates in Rhea: SPARQLing biochemical reaction data.

Lombardot T, Morgat A, Axelsen KB, Aimo L, Hyka-Nouspikel N, Niknejad A, Ignatchenko A, Xenarios I, Coudert E, Redaschi N, Bridge A.

Nucleic Acids Res. 2019 Jan 8;47(D1):D596-D600. doi: 10.1093/nar/gky876.

5.

Cycles of gene expression and genome response during mammalian tissue regeneration.

Rib L, Villeneuve D, Minocha S, Praz V, Hernandez N, Guex N, Herr W; CycliX Consortium.

Epigenetics Chromatin. 2018 Sep 12;11(1):52. doi: 10.1186/s13072-018-0222-0.

6.

Estimating the Contribution of Proteasomal Spliced Peptides to the HLA-I Ligandome.

Mylonas R, Beer I, Iseli C, Chong C, Pak HS, Gfeller D, Coukos G, Xenarios I, Müller M, Bassani-Sternberg M.

Mol Cell Proteomics. 2018 Dec;17(12):2347-2357. doi: 10.1074/mcp.RA118.000877. Epub 2018 Aug 31.

7.

Scaling up data curation using deep learning: An application to literature triage in genomic variation resources.

Lee K, Famiglietti ML, McMahon A, Wei CH, MacArthur JAL, Poux S, Breuza L, Bridge A, Cunningham F, Xenarios I, Lu Z.

PLoS Comput Biol. 2018 Aug 13;14(8):e1006390. doi: 10.1371/journal.pcbi.1006390. eCollection 2018 Aug.

8.

A systems genetics resource and analysis of sleep regulation in the mouse.

Diessler S, Jan M, Emmenegger Y, Guex N, Middleton B, Skene DJ, Ibberson M, Burdet F, Götz L, Pagni M, Sankar M, Liechti R, Hor CN, Xenarios I, Franken P.

PLoS Biol. 2018 Aug 9;16(8):e2005750. doi: 10.1371/journal.pbio.2005750. eCollection 2018 Aug.

9.

Expert curation for building network-based dynamical models: a case study on atherosclerotic plaque formation.

Bekkar A, Estreicher A, Niknejad A, Casals-Casas C, Bridge A, Xenarios I, Dorier J, Crespo I.

Database (Oxford). 2018 Jan 1;2018. doi: 10.1093/database/bay031.

10.

Personalized cancer vaccine effectively mobilizes antitumor T cell immunity in ovarian cancer.

Tanyi JL, Bobisse S, Ophir E, Tuyaerts S, Roberti A, Genolet R, Baumgartner P, Stevenson BJ, Iseli C, Dangaj D, Czerniecki B, Semilietof A, Racle J, Michel A, Xenarios I, Chiang C, Monos DS, Torigian DA, Nisenbaum HL, Michielin O, June CH, Levine BL, Powell DJ Jr, Gfeller D, Mick R, Dafni U, Zoete V, Harari A, Coukos G, Kandalaft LE.

Sci Transl Med. 2018 Apr 11;10(436). pii: eaao5931. doi: 10.1126/scitranslmed.aao5931.

PMID:
29643231
11.

Deciphering the Dynamic Transcriptional and Post-transcriptional Networks of Macrophages in the Healthy Heart and after Myocardial Injury.

Walter W, Alonso-Herranz L, Trappetti V, Crespo I, Ibberson M, Cedenilla M, Karaszewska A, Núñez V, Xenarios I, Arroyo AG, Sánchez-Cabo F, Ricote M.

Cell Rep. 2018 Apr 10;23(2):622-636. doi: 10.1016/j.celrep.2018.03.029.

12.

Sensitive and frequent identification of high avidity neo-epitope specific CD8 + T cells in immunotherapy-naive ovarian cancer.

Bobisse S, Genolet R, Roberti A, Tanyi JL, Racle J, Stevenson BJ, Iseli C, Michel A, Le Bitoux MA, Guillaume P, Schmidt J, Bianchi V, Dangaj D, Fenwick C, Derré L, Xenarios I, Michielin O, Romero P, Monos DS, Zoete V, Gfeller D, Kandalaft LE, Coukos G, Harari A.

Nat Commun. 2018 Mar 15;9(1):1092. doi: 10.1038/s41467-018-03301-0.

13.

KIAA1109 Variants Are Associated with a Severe Disorder of Brain Development and Arthrogryposis.

Gueneau L, Fish RJ, Shamseldin HE, Voisin N, Tran Mau-Them F, Preiksaitiene E, Monroe GR, Lai A, Putoux A, Allias F, Ambusaidi Q, Ambrozaityte L, Cimbalistienė L, Delafontaine J, Guex N, Hashem M, Kurdi W, Jamuar SS, Ying LJ, Bonnard C, Pippucci T, Pradervand S, Roechert B, van Hasselt PM, Wiederkehr M, Wright CF; DDD Study, Xenarios I, van Haaften G, Shaw-Smith C, Schindewolf EM, Neerman-Arbez M, Sanlaville D, Lesca G, Guibaud L, Reversade B, Chelly J, Kučinskas V, Alkuraya FS, Reymond A.

Am J Hum Genet. 2018 Jan 4;102(1):116-132. doi: 10.1016/j.ajhg.2017.12.002. Epub 2017 Dec 28.

14.

Neutrophils and Snail Orchestrate the Establishment of a Pro-tumor Microenvironment in Lung Cancer.

Faget J, Groeneveld S, Boivin G, Sankar M, Zangger N, Garcia M, Guex N, Zlobec I, Steiner L, Piersigilli A, Xenarios I, Meylan E.

Cell Rep. 2017 Dec 12;21(11):3190-3204. doi: 10.1016/j.celrep.2017.11.052.

15.

Low number of fixed somatic mutations in a long-lived oak tree.

Schmid-Siegert E, Sarkar N, Iseli C, Calderon S, Gouhier-Darimont C, Chrast J, Cattaneo P, Schütz F, Farinelli L, Pagni M, Schneider M, Voumard J, Jaboyedoff M, Fankhauser C, Hardtke CS, Keller L, Pannell JR, Reymond A, Robinson-Rechavi M, Xenarios I, Reymond P.

Nat Plants. 2017 Dec;3(12):926-929. doi: 10.1038/s41477-017-0066-9. Epub 2017 Dec 4.

PMID:
29209081
16.

Systems biology of the IMIDIA biobank from organ donors and pancreatectomised patients defines a novel transcriptomic signature of islets from individuals with type 2 diabetes.

Solimena M, Schulte AM, Marselli L, Ehehalt F, Richter D, Kleeberg M, Mziaut H, Knoch KP, Parnis J, Bugliani M, Siddiq A, Jörns A, Burdet F, Liechti R, Suleiman M, Margerie D, Syed F, Distler M, Grützmann R, Petretto E, Moreno-Moral A, Wegbrod C, Sönmez A, Pfriem K, Friedrich A, Meinel J, Wollheim CB, Baretton GB, Scharfmann R, Nogoceke E, Bonifacio E, Sturm D, Meyer-Puttlitz B, Boggi U, Saeger HD, Filipponi F, Lesche M, Meda P, Dahl A, Wigger L, Xenarios I, Falchi M, Thorens B, Weitz J, Bokvist K, Lenzen S, Rutter GA, Froguel P, von Bülow M, Ibberson M, Marchetti P.

Diabetologia. 2018 Mar;61(3):641-657. doi: 10.1007/s00125-017-4500-3. Epub 2017 Nov 28.

17.

SourceData: a semantic platform for curating and searching figures.

Liechti R, George N, Götz L, El-Gebali S, Chasapi A, Crespo I, Xenarios I, Lemberger T.

Nat Methods. 2017 Oct 31;14(11):1021-1022. doi: 10.1038/nmeth.4471. No abstract available.

PMID:
29088127
18.

Identifying biological mechanisms for favorable cancer prognosis using non-hypothesis-driven iterative survival analysis.

Crespo I, Götz L, Liechti R, Coukos G, Doucey MA, Xenarios I.

NPJ Syst Biol Appl. 2016 Dec 22;2:16037. doi: 10.1038/npjsba.2016.37. eCollection 2016.

19.

Local auxin production underlies a spatially restricted neighbor-detection response in Arabidopsis.

Michaud O, Fiorucci AS, Xenarios I, Fankhauser C.

Proc Natl Acad Sci U S A. 2017 Jul 11;114(28):7444-7449. doi: 10.1073/pnas.1702276114. Epub 2017 Jun 26.

20.

A Clb/Cdk1-mediated regulation of Fkh2 synchronizes CLB expression in the budding yeast cell cycle.

Linke C, Chasapi A, González-Novo A, Al Sawad I, Tognetti S, Klipp E, Loog M, Krobitsch S, Posas F, Xenarios I, Barberis M.

NPJ Syst Biol Appl. 2017 Mar 6;3:7. doi: 10.1038/s41540-017-0008-1. eCollection 2017.

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