FUNCTIONAL GENOMICS OF CANCER Kourtidis, A., R. Jain, R.D. Carkner, C. Eifert, M.J. Brosnan and D.S. Conklin, 2010. An RNAi screen identifies metabolic regulators NR1D1 and PBP as novel survival factors for breast cancer cells with the ERBB2 signature. Cancer Res. 70(5):1783-92 Kourtidis, A., R. Srinivasaiah, R.D. Carkner, M.J. Brosnan and D.S. Conklin, 2009. PPARgamma protects ERBB2-positive breast cancer cells from palmitate toxicity. Breast Cancer Res.11(2):R16 Adam, A.P., A. George, D. Schewe, P. Bragado, B.V. Iglesias, A.C. Ranganathan, A. Kourtidis, D.S. Conklin and J.A. Aguirre-Ghiso, 2009. Computational identification of a p38SAPK-regulated transcription factor network required for tumor cell quiescence. Cancer Res. 69(14):5664-72 Ranganathan, A.C., A. Kourtidis, S. Ojha, A. Kourtidis, D. S. Conklin and J. A. Aguirre-Ghiso. 2008. Dual function of pancreatic endoplasmic reticulum kinase in tumor cell growth arrest and survival. Cancer Res. 68(9):3260-8 Evans, S., A. Kourtidis, T. S. Markham, J. Miller, D. S. Conklin and A. Torres, 2007. microRNA target detection and analysis for genes related to breast cancer using MDLcompress. EURASIP Journal on Bioinformatics and Systems Biology vol. 2007, Article ID 43670 CELL CYCLE Lastro, M.L., A. Kourtidis, K. Farley, and D.S. Conklin, 2008. xCT expression reduces the early cell cycle requirement for calcium. Cell. Signal. 20:390-399 O'Connell, C. B., J. Loncarek, P. Hergert, A.Kourtidis, D.S. Conklin, and A. Khodjakov, 2008. The spindle assembly checkpoint monitors attachment and not tension during mitosis with an unreplicated genome (MUG). J Cell Biol. 183(1):29-36 RNAi TECHNOLOGY FOR MAMMALIAN FUNCTIONAL GENOMICS Paddison, PJ, Silva, JM, Conklin, DS, Schlabach, M., Li, M., Aruleba, S., Balija, V., O Shaughnessy, A., Gnoj, L., Scobie, K., Chang,K., Westbrook,T., Sachidanandam, R., McCombie, WR, Elledge SJ and Hannon, GJ, 2004. A resource for large-scale RNAi based screens in mammals. Nature 428, 427 - 431. Carmell, M.A., L. Zhang, D.S. Conklin, G.J. Hannon, and T.A. Rosenquist, 2003. Germline transmission of RNAi in mice. Nat Struct Biol 10:91-2 McCaffrey, A.P., L Meuse, T-T T. Pham, D.S. Conklin, G.J. Hannon, and M.A. Kay, 2002. RNA interference in adult mice. Nature 418:38-9 Paddison P. J. , A. A. Caudy, E. Bernstein, G.J. Hannon and D.S. Conklin, 2002. Short hairpin RNAs (shRNAs) induce sequence-specific silencing in mammalian cells. Genes Dev. 16:948-58 Hannon, G.J., P.Q. Sun, A. Carnero, L. Xie, R. Maestro, D.S. Conklin, and D. Beach, 1999. MaRX: An approach to genetics in animal cells. Science 283:1129-1130 FUNCTIONAL GENOMICS OF DNA REPAIR Rooney, J. P., A. George, A. Patil, U. Begley, E. Bessette, M. Zappala, X. Huang, D.S. Conklin, R.P. Cunningham and T.J. Begley, 2009. Systems based mapping demonstrates that recovery from alkylation damage requires DNA repair, RNA processing, and translation associated networks. Genomics 93:42-51 Rooney, J. P., A. Patil, D.S. Conklin, R.P. Cunningham and T.J. Begley, 2008. A molecular bar-coded DNA repair resource for pooled toxicogenomic screens. DNA Repair 7:1855-68 Begley, U., M. Dyavaiah, A. Patil, J. P. Rooney, D. DiRenzo, C.M. Young, D.S. Conklin, R.S. Zitomer and T.J. Begley, 2007. Trm9 catalyzed tRNA modifications link translation to the DNA damage response. Mol. Cell 28:860-870