D956 Nucleic Acids Research, 2012, Vol. 40, Database issue Holloway,E. et al. (2011) ArrayExpress update—an archive of microarray and high-throughput sequencing-based functional genomics experiments. Nucleic Acids Res., 39, D1002–D1004. 20. Forbes Simon,A., Nidhi,B., Sally,B., Charlotte,C., Chai Yin,K., David,B., Mingming,J., Rebecca,S., Kenric,L., Andrew,M. et al. (2011) COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer. Nucleic Acids Res., 39, D945–D950. 21. Ebert,B.L., Lee,M.M., Pretz,J.L., Subramanian,A., Mak,R., Golub,T.R. and Sieff,C.A. (2005) An RNA interference model of RPS19 deﬁciency in Diamond-Blackfan anemia recapitulates defective hematopoiesis and rescue by dexamethasone: identiﬁcation of dexamethasone-responsive genes by microarray. Blood, 105, 4620–4626. 22. Barbie,D.A., Tamayo,P., Boehm,J.S., Kim,S.Y., Moody,S.E., Dunn,I.F., Schinzel,A.C., Sandy,P., Meylan,E., Scholl,C. et al. (2009) Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1. Nature, 462, 108–112. 23. Luo,J., Emanuele,M., Li,D., Creighton,C., Schlabach,M., Westbrook,T., Wong,K.-K. and Elledge,S. (2009) A genome-wide RNAi screen identiﬁes multiple synthetic lethal interactions with the Ras. Oncogene, 137, 835–848. 24. Fiegler,H., Redon,R., Andrews,D., Scott,C., Andrews,R., Carder,C., Clark,R., Dovey,O., Ellis,P., Feuk,L. et al. (2006) Accurate and reliable high-throughput detection of copy number variation in the human genome. Genome Res., 16, 1566–1574. 25. Redon,R., Ishikawa,S., Fitch,K.R., Feuk,L., Perry,G.H., Andrews,T.D., Fiegler,H., Shapero,M.H., Carson,A.R., Chen,W. et al. (2006) Global variation in copy number in the human genome. Nature, 444, 444–454. 26. Jensen,L.J., Kuhn,M., Stark,M., Chaffron,S., Creevey,C., Muller,J., Doerks,T., Julien,P., Roth,A., Simonovic,M. et al. (2009) STRING 8—a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res., 37, D412–D416. 27. Sims,D., Bursteinas,B., Gao,Q., Jain,E., MacKay,A., Mitsopoulos,C. and Zvelebil,M. (2010) ROCK: a breast cancer functional genomics resource. Breast Cancer Rese. Treatment, 124, 567–572. 28. Aranda,B., Blankenburg,H., Kerrien,S., Brinkman,F.S.L., Ceol,A., Chautard,E., Dana,J.M., De Las Rivas,J., Dumousseau,M., Galeota,E. et al. PSICQUIC and PSISCORE: accessing and scoring molecular interactions. Nat. Meth., 8, 528–529. 29. Aranda,B., Achuthan,P., Alam-Faruque,Y., Armean,I., Bridge,A., Derow,C., Feuermann,M., Ghanbarian,A.T., Kerrien,S., Khadake,J. et al. (2010) The IntAct molecular interaction database in 2010. Nucleic Acids Res., 38, D525–D531. 30. Haw,R., Hermjakob,H. and D’Eustachio,P. and Stein, L. (2011) Reactome pathway analysis to enrich biological discovery in proteomics datasets. PROTEOMICS, n/a-n/a, 11, 3598–3613. 31. Berman,H.M., Westbrook,J., Feng,Z., Gilliland,G., Bhat,T.N., Weissig,H., Shindyalov,I.N. and Bourne,P.E. (2000) The protein data bank. Nucleic Acids Res., 28, 235–242. 32. Velankar,S., Alhroub,Y., Alili,A.l., Best,C., Boutselakis,H.C., Caboche,S.g.n., Conroy,M.J., Dana,J.M., van Ginkel,G., Golovin,A. et al. (2011) PDBe: protein data bank in Europe. Nucleic Acids Res., 39, D402–D410. 33. Andreeva,A., Howorth,D., Chandonia,J.-M., Brenner,S.E., Hubbard,T.J.P., Chothia,C. and Murzin,A.G. (2008) Data growth and its impact on the SCOP database: new developments. Nucleic Acids Res., 36, D419–D425. 34. Chandonia,J.A¨ ., Hon,G., Walker,N.S., Lo Conte,L., Koehl,P., Levitt,M. and Brenner,S.E. (2004) The ASTRAL compendium in 2004. Nucleic Acids Res., 32, D189–D192. 35. Kabsch,W. and Sander,C. (1983) Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features. Biopolymers, 22, 2577–2637. 36. Wallace,A.C., Laskowski,R.A. and Thornton,J.M. (1995) LIGPLOT: a program to generate schematic diagrams of protein-ligand interactions. Protein Engineering, 8, 127–134. 37. McDonald,I.K. and Thornton,J.M. (1994) Satisfying hydrogen bonding potential in proteins. J. Mol. Biol., 238, 777–793. 38. Overington,J.P., Al-Lazikani,B. and Hopkins,A.L. (2006) How many drug targets are there? Nat. Rev. Drug Discov., 5, 993–996. 39. Hopkins,A.L. and Groom,C.R. (2002) The druggable genome. Nat. Rev. Drug Discov., 1, 727–730. 40. Orchard,S., Al-Lazikani,B., Bryant,S., Clark,D., Calder,E., Dix,I., Engkvist,O., Forster,M., Gaulton,A., Gilson,M. et al. (2011) Minimum information about a bioactive entity (MIABE). Nature Biotech., 10, 661–669. 41. Steinbeck,C., Han,Y., Kuhn,S., Horlacher,O., Luttmann,E. and Willighagen,E. (2003) The Chemistry Development Kit (CDK): an open-source java library for chemo- and bioinformatics. J. Chem. Informat. Comput. Sci., 43, 493–500. 42. Atwell,S., Adams,J.M., Badger,J., Buchanan,M.D., Feil,I.K., Froning,K.J., Gao,X., Hendle,J.r., Keegan,K., Leon,B.C. et al. (2004) A novel mode of gleevec binding is revealed by the structure of spleen tyrosine kinase. J. Biol Chem., 279, 55827–55832.