2000-2011
Szczurek E, Markowetz F, Gat-Viks I, Biecek P, Tiuryn J, Vingron M: Deregulation upon DNA damage revealed by joint analysis of context-specific perturbation data. BMC bioinformatics 2011, 12:249.
Ziv-Ukelson M, Gat-Viks I, Wexler Y, Shamir R: A faster algorithm for simultaneous alignment and folding of RNA. Journal of computational biology : a journal of computational molecular cell biology 2010, 17(8):1051-1065.
Gat-Viks I, Meller R, Kupiec M, Shamir R: Understanding gene sequence variation in the context of transcription regulation in yeast. PLoS genetics 2010, 6(1):e1000800.
Shapira SD, Gat-Viks I, Shum BO, Dricot A, de Grace MM, Wu L, Gupta PB, Hao T, Silver SJ, Root DE et al: A physical and regulatory map of host-influenza interactions reveals pathways in H1N1 infection. Cell 2009, 139(7):1255-1267.
Bass AJ, Watanabe H, Mermel CH, Yu S, Perner S, Verhaak RG, Kim SY, Wardwell L, Tamayo P, Gat-Viks I et al: SOX2 is an amplified lineage-survival oncogene in lung and esophageal squamous cell carcinomas. Nature genetics 2009, 41(11):1238-1242.
Szczurek E, Gat-Viks I, Tiuryn J, Vingron M: Elucidating regulatory mechanisms downstream of a signaling pathway using informative experiments. Molecular systems biology 2009, 5:287.
Gat-Viks I, Vingron M: Evidence for gene-specific rather than transcription rate-dependent histone H3 exchange in yeast coding regions. PLoS computational biology 2009, 5(2):e1000282.
Ulitsky I, Gat-Viks I, Shamir R: MetaReg: a platform for modeling, analysis and visualization of biological systems using large-scale experimental data. Genome biology 2008, 9(1):R1.
Gat-Viks I, Shamir R: Refinement and expansion of signaling pathways: the osmotic response network in yeast. Genome research 2007, 17(3):358-367.
10. Gat-Viks I, Tanay A, Raijman D, Shamir R: A probabilistic methodology for integrating knowledge and experiments on biological networks. Journal of computational biology : a journal of computational molecular cell biology 2006, 13(2):165-181.
Gat-Viks I, Tanay A, Shamir R: Modeling and analysis of heterogeneous regulation in biological networks. Journal of computational biology : a journal of computational molecular cell biology 2004, 11(6):1034-1049.
Tanay A, Gat-Viks I, Shamir R: A global view of the selection forces in the evolution of yeast cis-regulation. Genome research 2004, 14(5):829-834.
Gat-Viks I, Shamir R, Karp RM, Sharan R: Reconstructing chain functions in genetic networks. Pacific Symposium on Biocomputing Pacific Symposium on Biocomputing 2004:498-509.
Gat-Viks I, Sharan R, Shamir R: Scoring clustering solutions by their biological relevance. Bioinformatics 2003, 19(18):2381-2389.
Gat-Viks I, Shamir R: Chain functions and scoring functions in genetic networks. Bioinformatics 2003, 19 Suppl 1:i108-117.