Publication Highlights


  • Interaction Landscape of Inherited Polymorphisms with Somatic Events in Cancer. Hannah Carter, et. al., Cancer Discov. 2017 Feb 10. [PDF] [PubMed]

  • Active Interaction Mapping Reveals the Hierarchical Organization of Autophagy. Kramer MH, et. al. Mol Cell (2017) [PDF] [PubMed]



  • Exome sequencing links corticospinal motor neuron disease to common neurodegenerative disorders. Novarino G, et. al., Science (2014) [Get PDF] [PubMed]

  • Network-based stratification of tumor mutations. Hofree M, Shen JP, Carter H, Gross A, Ideker T.  Nat Methods 10(11):1108-15 (2013) [Get PDF] [PubMed]


  • Hannum G, Guinney J, Zhao L, Zhang L, Hughes G, Sadda S, Klotzle B, Bibikova M, Fan JB, Gao Y, Deconde R, Chen M, Rajapakse I, Friend S, Ideker T, Zhang K. Genome-wide Methylation Profiles Reveal Quantitative Views of Human AgingMolecular Cell. 2013 Jan 24;49(2):359-67. doi: 10.1016/j.molcel.2012.10.016. Epub 2012 Nov 21 [Get PDF] [PubMed link]  

  • Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller D, Licon K, Copeland W, Shales M, Fiedler D, Dutkowski J, Guenole A, van Attikum H, Shokat KM, Kolodner RD, Huh WK, Aebersold R, Keogh MC, Krogan NJ, Ideker T. Rewiring of genetic networks in response to DNA damage. Science 330:1385-1389 (2010). [Get PDF] [Suppl Docs] [Pubmed link]

  • Ravasi, T., Suzuki, H., Cannistraci, C.V., et al. An atlas of combinatorial transcriptional regulation in mouse and man. Cell 14 (5):744-752 (2010). [Pubmed link]

  • Roguev, A., Bandyopadhyay, S., Zofall, M., Zhang, K., Fischer, T., Collins, S.R., Qu, H., Shales, M., Park, H.O., Hayles, J., Hoe, K.L., Kim, D.U., Ideker, T.*, Grewal, S.I.*, Weissman, J.S.*, Krogan, N.J.* Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast. Science. 322:405-410 (2008). [Get PDF] [Pubmed link]
    *Corresponding Authors

  • Chuang, HY, Lee, E, Liu, YT, Lee, D, and Ideker, T. Network-based classification of breast cancer metastasis. Mol Syst Biol. 3:140 (2007). [Get PDF] [Online link]

  • Workman, CT., Mak, HC., McCuine, S., Tagne, JB., Agarwal, M., Ozier, O., Begley, TJ., Samson, LD., Ideker, T. A Systems Approach to Mapping DNA Damage Response Pathways. Science. 312 (5776):1054-1059 (2006). [Get PDF] [Supp. Info.] [PubMed link]

  • Suthram, S., Sittler, T., and Ideker, T. The Plasmodium protein network diverges from those of other eukaryotes. Nature 438(7064):108-12 (2005). [Get PDF] [Supp. Info.] [PubMed link]

  • Kelley, R. and Ideker, T. Systematic interpretation of genetic interactions using protein networks. Nature Biotechnology 23(5):561-566 (2005). [Get PDF] [PubMed link]


  • Ideker, T., Thorsson, V., Ranish, J. A., Christmas, R., Buhler, J., Eng, J. K., Bumgarner, R., Goodlett, D. R., Aebersold, R., and Hood, L. Integrated Genomic and Proteomic Analyses of a Systematically Perturbed Metabolic Network. Science, 292: 929-934 (2001). [Get PDF] [Companion Website] [PubMed link]