MoKCa database - Mutations of kinases in cancer

Nucleic Acids Research

Volumn 37, Issue SUPPL. 1, 2009, Pages

  Richardson, Christopher J ^a   Gao, Qiong ^a   Mitsopoulous, Costas ^a   Zvelebil, Marketa ^a   Pearl, Laurence H ^a   Pearl, Frances M G ^a  

^a INSTITUTE OF CANCER RESEARCH   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID DERIVATIVE; PROTEIN KINASE;

AMINO ACID SEQUENCE; ARTICLE; CARCINOGENESIS; COMPUTER GRAPHICS; COMPUTER INTERFACE; CRYSTAL STRUCTURE; GENE MAPPING; GENE MUTATION; GENETIC ALGORITHM; GENETIC DATABASE; HUMAN; INFORMATION PROCESSING; MALIGNANT NEOPLASTIC DISEASE; MUTATIONAL ANALYSIS; MUTATIONS OF KINASES IN CANCER DATABASE; PHENOTYPE; PRIORITY JOURNAL; PROTEIN DOMAIN; PROTEIN FUNCTION; PROTEIN PHOSPHORYLATION; PROTEIN STRUCTURE; SOMATIC MUTATION; THREE DIMENSIONAL IMAGING; TUMOR CELL LINE;

DATABASES, PROTEIN; HUMANS; MUTATION; NEOPLASMS; PROTEIN INTERACTION MAPPING; PROTEIN KINASES; PROTEIN STRUCTURE, TERTIARY; USER-COMPUTER INTERFACE;

EID: 58149199567     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkn832     Document Type: Article

References (42)

1. Daley,G.Q., Van Etten,R.A. and Baltimore,D. (1990) Induction of chronic myelogenous leukemia in mice by the P210bcr/abl gene of the Philadelphia chromosome. Science, 247, 824-830.
2. Burnworth,B, Arendt,S., Muffler,S., Steinkraus,V., Bröcker,E.B., Birek,C., Hartschuh,W., Jauch,A. and Boukamp,P. (2007) The multi-step process of human skin carcinogenesis: A role for p53, cyclin D1, hTERT, p16, and TSP-1. Eur. J. Cell. Biol., 86, 763-780.
3. Koorstra,J.B., Hustinx,S.R., Offerhaus,G.J. and Maitra,A. (2008) Pancreatic Carcinogenesis. Pancreatology, 8, 110-125.
4. Hanahan,D and Weinberg,R.A. (2000) The hallmarks of cancer. Cell, 100, 57-70.
5. Sawyers,C. (2004) Targeted cancer therapy. Nature, 432, 294-297.
6. Manning,G., Whyte,D.B., Martinez,R., Hunter,T. and Sudarsanam,S. (2002) The protein kinase complement of the human genome. Science, 298 1912-1934.
7. Braconi Quintaje,S and Orchard,S. (2008) The annotation of both human and mouse kinomes in UniProtKB/Swiss-Prot: One small step in manual annotation, one giant leap for full comprehension of genomes. Mol. Cell Proteomics, 7, 1409-1419.
8. Sjöblom,T., Jones,S., Wood,L.D., Parsons,D.W., Lin,J., Barber,T.D., Mandelker,D., Leary,R.J., Ptak,J., Silliman,N. et al. (2006) The consensus coding sequences of human breast and colorectal cancers. Science, 314, 268-274.
9. Greenman,C., Stephens,P., Smith,R., Dalgliesh,G.L., Hunter,C., Bignell,G., Davies,H., Teague,J., Butler,A., Stevens,C. et al. (2007) Patterns of somatic mutation in human cancer genomes. Nature 446, 153-158.
10. Wood,L.D., Parsons,D.W., Jones,S., Lin,J., Sjöblom,T., Leary,R.J., Shen,D., Boca,S.M., Barber,T., Ptak,J. et al. (2007) The genomic landscapes of human breast and colorectal cancers. Science, 318 1108-1113.
11. Greenman,C., Wooster,R., Futreal,P.A., Stratton,M.R. and Easton,D.F. (2006) Statistical analysis of pathogenicity of somatic mutations in cancer. Genetics, 173, 2187-2198.
12. Kaminker,J.S., Zhang,Y., Watanabe,C. and Zhang,Z. (2007) CanPredict: A computational tool for predicting cancer-associated missense mutations. Nucleic Acids Res., 35, W595-W598.
13. Torkamani,A. and Schork,N.J. (2008) Prediction of cancer driver mutations in protein kinases. Cancer Res., 68, 1675-1682.
14. Kaminker,J.S., Zhang,Y., Waugh,A., Haverty,P.M., Peters,B., Sebisanovic,D., Stinson,J., Forrest,W.F., Bazan,J.F., Seshagiri,S. et al. (2007) Distinguishing cancer-associated missense mutations from common polymorphisms. Cancer Res., 67, 465-473.
15. Lappalainen,I., Thusberg,J., Shen,B. and Vihinen,M. (2008) Genome wide analysis of pathogenic SH2 domain mutations. Proteins, 72, 779-792.
16. Ortutay,C., Väliaho,J., Stenberg,K. and Vihinen,M. (2005) KinMutBase: a registry of disease-causing mutations in protein kinase domains. Hum. Mutat., 25, 435-442.
17. Forbes,S.A., Bhamra,G., Bamford,S., Dawson,E., Kok,C., Clements,J., Menzies,A., Teague,J.W., Futreal,P.A. and Stratton,M.R. (2008) The Catalogue of Somatic Mutations in Cancer (COSMIC). Curr. Protoc. Hum. Genet. Chapter 10:UNit 10.11.
18. UniProt Consortium. (2008) The universal protein resource (UniProt). Nucleic Acids Res., 36, D190-D195.
19. Altschul,S.F., Madden,T.L., Schäffer,A.A., Zhang,J., Zhang,Z., Miller,W. and Lipman,D.J. (1997) Gapped BLAST and PSIBLAST: A new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402.
20. Bruford,E.A., Lush,M.J., Wright,M.W., Sneddon,T.P., Povey,S. and Birney,E. (2008) The HGNC Database in 2008: A resource for the human genome. Nucleic Acids Res., 36, D445-D448.
21. Finn,R.D., Tate,J., Mistry,J., Coggill,P.C., Sammut,S.J., Hotz,H.R., Ceric,G., Forslund,K., Eddy,S.R., Sonnhammer,E.L. et al. (2008) The Pfam protein families database. Nucleic Acids Res., 36, D281-D288.
22. Hulo,N., Bairoch,A., Bulliard,V., Cerutti,L., Cuche,B.A., de Castro,E., Lachaize,C., Langendijk-Genevaux,P.S. and Sigrist,C.J. (2008) The 20 years of PROSITE. Nucleic Acids Res., 36, D245-D249.
23. Diella,F., Gould,C.M., Chica,C., Via,A. and Gibson,T.J. (2008) Phospho.ELM: A database of phosphorylation sites-update 2008. Nucleic Acids Res., 36, D240-D244.
24. Velankar,S., McNeil,P., Mittard-Runte,V., Suarez,A., Barrell,D., Apweiler,R. and Henrick,K. (2005) E-MSD: An integrated data resource for bioinformatics. Nucleic Acids Res., 33, D262-D265.
25. Ng,P.C. and Henikoff,S. (2002) Accounting for human polymorphisms predicted to affect protein function. Genome Res., 12, 436-446.
26. Clifford,R.J., Edmonson,M.N., Nguyen,C. and Buetow,K.H. (2004) Large-scale analysis of non-synonymous coding region single nucleotide polymorphisms. Bioinformatics, 20, 1006-1014.
27. Chatr-aryamontri,A., Ceol,A., Palazzi,L.M., Nardelli,G., Schneider,M.V., Castagnoli,L. and Cesareni,G. (2007) MINT: The Molecular INTeraction database. Nucleic Acids Res., 35, D572-D574.
28. Pagel,P., Kovac,S., Oesterheld,M., Brauner,B., Dunger-Kaltenbach,I., Frishman,G., Montrone,C., Mark,P., Stümpflen,V., Mewes,H.W., Ruepp,A. and Frishman,D. (2005) The MIPS mammalian protein-protein interaction database. Bioinformatics, 21, 832-834.
29. Vastrik,I., D'Eustachio,P., Schmidt,E., Joshi-Tope,G., Gopinath,G., Croft,D., de Bono,B., Gillespie,M., Jassal,B., Lewis,S. et al. (2007) Reactome: A knowledge base of biologic pathways and processes. Genome Biol., 8, R39.
30. Stark,C., Breitkreutz,B.J., Reguly,T., Boucher,L., Breitkreutz,A. and Tyers,M. (2006) BioGRID: A General Repository for Interaction Datasets. Nucleic Acids Res., 34, D535-D539.
31. Mishra,G.R., Suresh,M., Kumaran,K., Kannabiran,N., Suresh,S., Bala,P., Shivakumar,K., Anuradha,N., Reddy,R., Raghavan,T.M. et al. (2006) Human Protein Reference Database - 2006 Update. Nucleic Acids Res. 34, D411-D414.
32. Kerrien,S., Alam-Faruque,Y., Aranda,B., Bancarz,I., Bridge,A., Derow,C., Dimmer,E., Feuermann,M., Friedrichsen,A., Huntley,R. et al. (2007) IntAct-open source resource for molecular interaction data. Nucleic Acids Res., 35, D561-D565.
33. Alfarano,C., Andrade,C.E., Anthony,K., Bahroos,N., Bajec,M., Bantoft,K., Betel,D., Bobechko,B., Boutilier,K., Burgess,E. et al. (2005) The Biomolecular Interaction Network Database and related tools 2005 update. Nucleic Acids Res., 33, D418-D424.
34. O'Brien,K.P., Remm,M. and Sonnhammer,E.L. (2005) Inparanoid: A comprehensive database of eukaryotic orthologs. Nucleic Acids Res. 33, D476-D480.
35. Wheeler,D.L., Barrett,T., Benson,D.A., Bryant,S.H., Canese,K., Chetvernin,V., Church,D.M., Dicuccio,M., Edgar,R., Federhen,S. et al. (2008) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 36, D13-D21.
36. Flicek,P., Aken,B.L., Beal,K., Ballester,B., Caccamo,M., Chen,Y., Clarke,L., Coates,G., Cunningham,F., Cutts,T. et al. (2008) Ensembl 2008. Nucleic Acids Res., 36, D707-D714.
37. Gene Ontology Consortium (2008) The Gene Ontology project in 2008. Nucleic Acids Res., 36, D440-D444.
38. 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.
39. Pearl,F., Todd,A., Sillitoe,I., Dibley,M., Redfern,O., Lewis,T., Bennett,C., Marsden,R., Grant,A., Lee,D. et al. (2005) The CATH Domain Structure Database and related resources Gene3D and DHS provide comprehensive domain family information for genome analysis. Nucleic Acids Res., 33, D247-D251.
40. Yeats,C., Lees,J., Reid,A., Kellam,P., Martin,N., Liu,X. and Orengo,C. (2008) Gene3D: Comprehensive structural and functional annotation of genomes. Nucleic Acids Res., 36, D414-D418.
41. Letunic,I., Copley,R.R., Pils,B., Pinkert,S., Schultz,J. and Bork,P. (2006) SMART 5: Domains in the context of genomes and networks. Nucleic Acids Res., 34, D257-D260.
42. Fernández,J.M., Hoffmann,R. and Valencia,A. (2007) iHOP web services. Nucleic Acids Res., 35, W21-W26.