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Items: 44

1.

Anemia measurements to distinguish between viral and bacterial infections in the emergency department.

Steuerman Y, Wasserman A, Zeltser D, Shapira I, Trotzky D, Halpern P, Meilik A, Raykhshtat E, Berliner S, Rogowski O, Gat-Viks I, Shenhar-Tsarfaty S.

Eur J Clin Microbiol Infect Dis. 2019 Sep 6. doi: 10.1007/s10096-019-03682-0. [Epub ahead of print]

PMID:
31493048
2.

Predicting Phenotypic Diversity from Molecular and Genetic Data.

Harel T, Peshes-Yaloz N, Bacharach E, Gat-Viks I.

Genetics. 2019 Sep;213(1):297-311. doi: 10.1534/genetics.119.302463. Epub 2019 Jul 27.

PMID:
31352366
3.

Linking Cell Dynamics With Gene Coexpression Networks to Characterize Key Events in Chronic Virus Infections.

Pedragosa M, Riera G, Casella V, Esteve-Codina A, Steuerman Y, Seth C, Bocharov G, Heath S, Gat-Viks I, Argilaguet J, Meyerhans A.

Front Immunol. 2019 May 3;10:1002. doi: 10.3389/fimmu.2019.01002. eCollection 2019.

4.

Mapping novel genetic loci associated with female liver weight variations using Collaborative Cross mice.

Abu-Toamih Atamni HJ, Botzman M, Mott R, Gat-Viks I, Iraqi FA.

Animal Model Exp Med. 2018 Oct 24;1(3):212-220. doi: 10.1002/ame2.12036. eCollection 2018 Sep.

5.

Cell composition analysis of bulk genomics using single-cell data.

Frishberg A, Peshes-Yaloz N, Cohn O, Rosentul D, Steuerman Y, Valadarsky L, Yankovitz G, Mandelboim M, Iraqi FA, Amit I, Mayo L, Bacharach E, Gat-Viks I.

Nat Methods. 2019 Apr;16(4):327-332. doi: 10.1038/s41592-019-0355-5. Epub 2019 Mar 18.

PMID:
30886410
6.

Personalized Hydrogels for Engineering Diverse Fully Autologous Tissue Implants.

Edri R, Gal I, Noor N, Harel T, Fleischer S, Adadi N, Green O, Shabat D, Heller L, Shapira A, Gat-Viks I, Peer D, Dvir T.

Adv Mater. 2019 Jan;31(1):e1803895. doi: 10.1002/adma.201803895. Epub 2018 Nov 8.

PMID:
30406960
7.

Dissection of Influenza Infection In Vivo by Single-Cell RNA Sequencing.

Steuerman Y, Cohen M, Peshes-Yaloz N, Valadarsky L, Cohn O, David E, Frishberg A, Mayo L, Bacharach E, Amit I, Gat-Viks I.

Cell Syst. 2018 Jun 27;6(6):679-691.e4. doi: 10.1016/j.cels.2018.05.008. Epub 2018 Jun 6.

8.

Significant common environmental effects on leukocyte subpopulations.

Botzman M, Gat-Viks I.

PLoS One. 2018 Apr 24;13(4):e0196193. doi: 10.1371/journal.pone.0196193. eCollection 2018.

9.

Integration of Murine and Human Studies for Mapping Periodontitis Susceptibility.

Nashef A, Qabaja R, Salaymeh Y, Botzman M, Munz M, Dommisch H, Krone B, Hoffmann P, Wellmann J, Laudes M, Berger K, Kocher T, Loos B, van der Velde N, Uitterlinden AG, de Groot LCPGM, Franke A, Offenbacher S, Lieb W, Divaris K, Mott R, Gat-Viks I, Wiess E, Schaefer A, Iraqi FA, Haddad YH.

J Dent Res. 2018 May;97(5):537-546. doi: 10.1177/0022034517744189. Epub 2018 Jan 2.

10.

Reconstructing the Molecular Function of Genetic Variation in Regulatory Networks.

Wilentzik R, Ye CJ, Gat-Viks I.

Genetics. 2017 Dec;207(4):1699-1709. doi: 10.1534/genetics.117.300381. Epub 2017 Oct 18.

11.

Dissecting the Effect of Genetic Variation on the Hepatic Expression of Drug Disposition Genes across the Collaborative Cross Mouse Strains.

Nachshon A, Abu-Toamih Atamni HJ, Steuerman Y, Sheikh-Hamed R, Dorman A, Mott R, Dohm JC, Lehrach H, Sultan M, Shamir R, Sauer S, Himmelbauer H, Iraqi FA, Gat-Viks I.

Front Genet. 2016 Oct 5;7:172. eCollection 2016.

12.

Extracellular Matrix Proteolysis by MT1-MMP Contributes to Influenza-Related Tissue Damage and Mortality.

Talmi-Frank D, Altboum Z, Solomonov I, Udi Y, Jaitin DA, Klepfish M, David E, Zhuravlev A, Keren-Shaul H, Winter DR, Gat-Viks I, Mandelboim M, Ziv T, Amit I, Sagi I.

Cell Host Microbe. 2016 Oct 12;20(4):458-470. doi: 10.1016/j.chom.2016.09.005.

13.

ImmQuant: a user-friendly tool for inferring immune cell-type composition from gene-expression data.

Frishberg A, Brodt A, Steuerman Y, Gat-Viks I.

Bioinformatics. 2016 Dec 15;32(24):3842-3843. Epub 2016 Aug 16.

14.

Mapping liver fat female-dependent quantitative trait loci in collaborative cross mice.

Atamni HJ, Botzman M, Mott R, Gat-Viks I, Iraqi FA.

Mamm Genome. 2016 Dec;27(11-12):565-573. Epub 2016 Jul 15.

PMID:
27422773
15.

POEM: Identifying Joint Additive Effects on Regulatory Circuits.

Botzman M, Nachshon A, Brodt A, Gat-Viks I.

Front Genet. 2016 Apr 19;7:48. doi: 10.3389/fgene.2016.00048. eCollection 2016.

16.

Exploiting Gene-Expression Deconvolution to Probe the Genetics of the Immune System.

Steuerman Y, Gat-Viks I.

PLoS Comput Biol. 2016 Apr 1;12(4):e1004856. doi: 10.1371/journal.pcbi.1004856. eCollection 2016 Apr.

17.

CoD: inferring immune-cell quantities related to disease states.

Frishberg A, Steuerman Y, Gat-Viks I.

Bioinformatics. 2015 Dec 15;31(24):3961-9. doi: 10.1093/bioinformatics/btv498. Epub 2015 Aug 26.

PMID:
26315914
18.

Proteomics-level analysis of myelin formation and regeneration in a mouse model for Vanishing White Matter disease.

Gat-Viks I, Geiger T, Barbi M, Raini G, Elroy-Stein O.

J Neurochem. 2015 Aug;134(3):513-26. doi: 10.1111/jnc.13142. Epub 2015 May 14.

19.

Analysing human neural stem cell ontogeny by consecutive isolation of Notch active neural progenitors.

Edri R, Yaffe Y, Ziller MJ, Mutukula N, Volkman R, David E, Jacob-Hirsch J, Malcov H, Levy C, Rechavi G, Gat-Viks I, Meissner A, Elkabetz Y.

Nat Commun. 2015 Mar 23;6:6500. doi: 10.1038/ncomms7500.

20.

Linking traits based on their shared molecular mechanisms.

Oren Y, Nachshon A, Frishberg A, Wilentzik R, Gat-Viks I.

Elife. 2015 Mar 17;4. doi: 10.7554/eLife.04346.

21.

A statistical framework for revealing signaling pathways perturbed by DNA variants.

Wilentzik R, Gat-Viks I.

Nucleic Acids Res. 2015 Jun 23;43(11):e74. doi: 10.1093/nar/gkv203. Epub 2015 Mar 12.

22.

Dissecting dynamic genetic variation that controls temporal gene response in yeast.

Brodt A, Botzman M, David E, Gat-Viks I.

PLoS Comput Biol. 2014 Dec 4;10(12):e1003984. doi: 10.1371/journal.pcbi.1003984. eCollection 2014 Dec.

23.

Digital cell quantification identifies global immune cell dynamics during influenza infection.

Altboum Z, Steuerman Y, David E, Barnett-Itzhaki Z, Valadarsky L, Keren-Shaul H, Meningher T, Mendelson E, Mandelboim M, Gat-Viks I, Amit I.

Mol Syst Biol. 2014 Feb 28;10:720. doi: 10.1002/msb.134947. Print 2014.

24.

A minimum-labeling approach for reconstructing protein networks across multiple conditions.

Mazza A, Gat-Viks I, Farhan H, Sharan R.

Algorithms Mol Biol. 2014 Feb 9;9(1):1. doi: 10.1186/1748-7188-9-1.

25.

Elucidating influenza inhibition pathways via network reconstruction.

Mazza A, Gat-Viks I, Sharan R.

J Comput Biol. 2014 May;21(5):394-404. doi: 10.1089/cmb.2013.0147. Epub 2014 Jan 22.

26.

Deciphering molecular circuits from genetic variation underlying transcriptional responsiveness to stimuli.

Gat-Viks I, Chevrier N, Wilentzik R, Eisenhaure T, Raychowdhury R, Steuerman Y, Shalek AK, Hacohen N, Amit I, Regev A.

Nat Biotechnol. 2013 Apr;31(4):342-9. doi: 10.1038/nbt.2519. Epub 2013 Mar 17.

27.

Mutations causing medullary cystic kidney disease type 1 lie in a large VNTR in MUC1 missed by massively parallel sequencing.

Kirby A, Gnirke A, Jaffe DB, Barešová V, Pochet N, Blumenstiel B, Ye C, Aird D, Stevens C, Robinson JT, Cabili MN, Gat-Viks I, Kelliher E, Daza R, DeFelice M, Hůlková H, Sovová J, Vylet'al P, Antignac C, Guttman M, Handsaker RE, Perrin D, Steelman S, Sigurdsson S, Scheinman SJ, Sougnez C, Cibulskis K, Parkin M, Green T, Rossin E, Zody MC, Xavier RJ, Pollak MR, Alper SL, Lindblad-Toh K, Gabriel S, Hart PS, Regev A, Nusbaum C, Kmoch S, Bleyer AJ, Lander ES, Daly MJ.

Nat Genet. 2013 Mar;45(3):299-303. doi: 10.1038/ng.2543. Epub 2013 Feb 10.

28.

EZH2 promotes a bi-lineage identity in basal-like breast cancer cells.

Granit RZ, Gabai Y, Hadar T, Karamansha Y, Liberman L, Waldhorn I, Gat-Viks I, Regev A, Maly B, Darash-Yahana M, Peretz T, Ben-Porath I.

Oncogene. 2013 Aug 15;32(33):3886-95.

PMID:
22986524
29.

Systematic discovery of TLR signaling components delineates viral-sensing circuits.

Chevrier N, Mertins P, Artyomov MN, Shalek AK, Iannacone M, Ciaccio MF, Gat-Viks I, Tonti E, DeGrace MM, Clauser KR, Garber M, Eisenhaure TM, Yosef N, Robinson J, Sutton A, Andersen MS, Root DE, von Andrian U, Jones RB, Park H, Carr SA, Regev A, Amit I, Hacohen N.

Cell. 2011 Nov 11;147(4):853-67. doi: 10.1016/j.cell.2011.10.022.

30.

Deregulation upon DNA damage revealed by joint analysis of context-specific perturbation data.

Szczurek E, Markowetz F, Gat-Viks I, Biecek P, Tiuryn J, Vingron M.

BMC Bioinformatics. 2011 Jun 21;12:249. doi: 10.1186/1471-2105-12-249.

31.

A faster algorithm for simultaneous alignment and folding of RNA.

Ziv-Ukelson M, Gat-Viks I, Wexler Y, Shamir R.

J Comput Biol. 2010 Aug;17(8):1051-65. doi: 10.1089/cmb.2009.0197.

PMID:
20649420
32.

Understanding gene sequence variation in the context of transcription regulation in yeast.

Gat-Viks I, Meller R, Kupiec M, Shamir R.

PLoS Genet. 2010 Jan;6(1):e1000800. doi: 10.1371/journal.pgen.1000800. Epub 2010 Jan 8.

33.

A physical and regulatory map of host-influenza interactions reveals pathways in H1N1 infection.

Shapira SD, Gat-Viks I, Shum BO, Dricot A, de Grace MM, Wu L, Gupta PB, Hao T, Silver SJ, Root DE, Hill DE, Regev A, Hacohen N.

Cell. 2009 Dec 24;139(7):1255-67. doi: 10.1016/j.cell.2009.12.018.

34.

SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas.

Bass AJ, Watanabe H, Mermel CH, Yu S, Perner S, Verhaak RG, Kim SY, Wardwell L, Tamayo P, Gat-Viks I, Ramos AH, Woo MS, Weir BA, Getz G, Beroukhim R, O'Kelly M, Dutt A, Rozenblatt-Rosen O, Dziunycz P, Komisarof J, Chirieac LR, Lafargue CJ, Scheble V, Wilbertz T, Ma C, Rao S, Nakagawa H, Stairs DB, Lin L, Giordano TJ, Wagner P, Minna JD, Gazdar AF, Zhu CQ, Brose MS, Cecconello I, Ribeiro U Jr, Marie SK, Dahl O, Shivdasani RA, Tsao MS, Rubin MA, Wong KK, Regev A, Hahn WC, Beer DG, Rustgi AK, Meyerson M.

Nat Genet. 2009 Nov;41(11):1238-42. doi: 10.1038/ng.465. Epub 2009 Oct 4.

35.

Elucidating regulatory mechanisms downstream of a signaling pathway using informative experiments.

Szczurek E, Gat-Viks I, Tiuryn J, Vingron M.

Mol Syst Biol. 2009;5:287. doi: 10.1038/msb.2009.45. Epub 2009 Jul 7.

36.

Evidence for gene-specific rather than transcription rate-dependent histone H3 exchange in yeast coding regions.

Gat-Viks I, Vingron M.

PLoS Comput Biol. 2009 Feb;5(2):e1000282. doi: 10.1371/journal.pcbi.1000282. Epub 2009 Feb 6.

37.

MetaReg: a platform for modeling, analysis and visualization of biological systems using large-scale experimental data.

Ulitsky I, Gat-Viks I, Shamir R.

Genome Biol. 2008 Jan 2;9(1):R1. doi: 10.1186/gb-2008-9-1-r1.

38.

Refinement and expansion of signaling pathways: the osmotic response network in yeast.

Gat-Viks I, Shamir R.

Genome Res. 2007 Mar;17(3):358-67. Epub 2007 Jan 31.

39.

A probabilistic methodology for integrating knowledge and experiments on biological networks.

Gat-Viks I, Tanay A, Raijman D, Shamir R.

J Comput Biol. 2006 Mar;13(2):165-81.

PMID:
16597233
40.

Modeling and analysis of heterogeneous regulation in biological networks.

Gat-Viks I, Tanay A, Shamir R.

J Comput Biol. 2004;11(6):1034-49.

PMID:
15662196
41.

A global view of the selection forces in the evolution of yeast cis-regulation.

Tanay A, Gat-Viks I, Shamir R.

Genome Res. 2004 May;14(5):829-34.

42.

Reconstructing chain functions in genetic networks.

Gat-Viks I, Shamir R, Karp RM, Sharan R.

Pac Symp Biocomput. 2004:498-509.

43.

Scoring clustering solutions by their biological relevance.

Gat-Viks I, Sharan R, Shamir R.

Bioinformatics. 2003 Dec 12;19(18):2381-9.

PMID:
14668221
44.

Chain functions and scoring functions in genetic networks.

Gat-Viks I, Shamir R.

Bioinformatics. 2003;19 Suppl 1:i108-17.

PMID:
12855446

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