A survey of the population genetic variation in the human kinome

Journal of Human Genetics

Volumn 54, Issue 8, 2009, Pages 488-492

  Zhang, Wei ^a   Catenacci, Daniel V T ^a   Duan, Shiwei ^a   Ratain, Mark J ^a  

^a UNIVERSITY OF CHICAGO   (United States)

Author keywords

HapMap; Kinase; Kinome; Ligand; Single nucleotide polymorphism

Indexed keywords

KINOME; LIGAND; PROTEIN KINASE; UNCLASSIFIED DRUG;

ARTICLE; ETHNIC DIFFERENCE; GENE IDENTIFICATION; GENETIC ASSOCIATION; GENETIC SELECTION; GENETIC VARIABILITY; GENOME; GENOTYPE; HAPLOTYPE MAP; HEALTH DISPARITY; HEALTH SURVEY; HUMAN; MOLECULAR EVOLUTION; NORMAL HUMAN; POPULATION DIFFERENTIATION; SIGNAL TRANSDUCTION; SINGLE NUCLEOTIDE POLYMORPHISM;

GENETIC VARIATION; GENETICS, POPULATION; GENOME, HUMAN; HUMANS; PHOSPHOTRANSFERASES; POLYMORPHISM, SINGLE NUCLEOTIDE; POPULATION GROUPS;

EID: 69349090507     PISSN: 14345161     EISSN: None     Source Type: Journal    
DOI: 10.1038/jhg.2009.72     Document Type: Article

References (29)

1. Hunter, T. Signaling - 2000 and beyond. Cell 100, 113-127 (2000).
2. Manning, G., Whyte, D. B., Martinez, R., Hunter, T. & Sudarsanam, S. The protein kinase complement of the human genome. Science 298, 1912-1934 (2002).
3. Fabbro, D., Ruetz, S., Buchdunger, E., Cowan-Jacob, S. W., Fendrich, G., Liebetanz, J. et al. Protein kinases as targets for anticancer agents: from inhibitors to useful drugs. Pharmacol. Ther. 93, 79-98 (2002).
4. Dassonville, O., Bozec, A., Fischel, J. L. & Milano, G. EGFR targeting therapies: monoclonal antibodies versus tyrosine kinase inhibitors. Similarities and differences. Crit. Rev. Oncol. Hematol. 62, 53-61 (2007).
5. Harari, P. M., Allen, G. W. & Bonner, J. A. Biology of interactions: antiepidermal growth factor receptor agents. J. Clin. Oncol. 25, 4057-4065 (2007).
6. Ratain, M. J., Eisen, T., Stadler, W. M., Flaherty, K. T., Kaye, S. B., Rosner, G. L. et al. Phase II placebo-controlled randomized discontinuation trial of sorafenib in patients with metastatic renal cell carcinoma. J. Clin. Oncol. 24, 2505-2512 (2006).
7. Escudier, B., Eisen, T., Stadler, W. M., Szczylik, C., Oudard, S., Siebels, M. et al. Sorafenib in advanced clear-cell renal-cell carcinoma. N. Engl. J. Med. 356, 125-134 (2007).
8. Cohen, P. Protein kinases - the major drug targets of the twenty-first century? Nat. Rev. Drug. Discov. 1, 309-315 (2002).
9. Fejerman, L. & Ziv, E. Population differences in breast cancer severity. Pharmacogenomics 9, 323-333 (2008). (Pubitemid 351803935)
10. Taron, M., Ichinose, Y., Rosell, R., Mok, T., Massuti, B., Zamora, L. et al. Activating mutations in the tyrosine kinase domain of the epidermal growth factor receptor are associated with improved survival in gefitinib-treated chemorefractory lung adenocarcinomas. Clin. Cancer. Res. 11, 5878-5885 (2005).
11. Liu, W., Wu, X., Zhang, W., Montenegro, R. C., Fackenthal, D. L., Spitz, J. A. et al. Relationship of EGFR mutations, expression, amplification, and polymorphisms to epidermal growth factor receptor inhibitors in the NCI60 cell lines. Clin. Cancer. Res. 13, 6788-6795 (2007).
12. Gomase, V. S. & Tagore, S. Kinomics. Curr. Drug. Metab. 9, 255-258 (2008).
13. The International HapMap Consortium. The International HapMap Project. Nature 426, 789-796 (2003).
14. The International HapMap Consortium. A haplotype map of the human genome. Nature 437, 1299-1320 (2005).
15. Frazer, K. A., Ballinger, D. G., Cox, D. R., Hinds, D. A., Stuve, L. L., Gibbs, R. A. et al. A second generation human haplotype map of over 3.1 million SNPs. Nature 449, 851-861 (2007).
16. Zhang, W., Ratain, M. J. & Dolan, M. E. The HapMap resource is providing new insights into ourselves and its application to pharmacogenomics. Bioinform. Biol. Insights 2, 15-23 (2008).
17. Voight, B. F., Kudaravalli, S., Wen, X. & Pritchard, J. K. A map of recent positive selection in the human genome. PLoS Biol. 4, e72 (2006).
18. Zhang, W. & Dolan, M. E. Exploring the evolutionary history of the differentially expressed genes between human populations: action of recent positive selection. Evol. Bioinform. 4, 171-179 (2008).
19. Graeber, T. G. & Eisenberg, D. Bioinformatic identification of potential autocrine signaling loops in cancers from gene expression profiles. Nat. Genet. 29, 295-300 (2001).
20. Salwinski, L., Miller, C. S., Smith, A. J., Pettit, F. K., Bowie, J. U. & Eisenberg, D. The Database of Interacting Proteins: 2004 update. Nucleic Acids Res. 32, D449-D451 (2004).
21. Park, J., Hwang, S., Lee, Y. S., Kim, S. C. & Lee, D. SNP@Ethnos: a database of ethnically variant single-nucleotide polymorphisms. Nucleic Acids Res. 35, D711-D715 (2007). (Pubitemid 46056297)
22. Tibshirani, R., Hastie, T., Narasimhan, B. & Chu, G. Diagnosis of multiple cancer types by shrunken centroids of gene expression. Proc. Natl Acad. Sci. USA 99, 6567-6572 (2002).
23. Benjamini, Y. & Hochberg, Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. B (57), 289-300 (1995).
24. Dausset, J., Cann, H., Cohen, D., Lathrop, M., Lalouel, J. M. & White, R. Centre d'etude du polymorphisme humain (CEPH): collaborative genetic mapping of the human genome. Genomics 6, 575-577 (1990). (Pubitemid 20168693)
25. Zhang, W. & Dolan, M. E. On the challenges of the HapMap resource. Bioinformation 2, 238-239 (2008).
26. The 1000 Genomes Project Meeting Report: a workshop to plan a deep catalog of human genetic variation (http://www.1000genomes.org) (2007).
27. Mardis, E. R. The impact of next-generation sequencing technology on genetics. Trends Genet. 24, 133-141 (2008).
28. Mardis, E. R. Next-generation DNA sequencing methods. Annu. Rev. Genomics Hum. Genet. 9, 387-402 (2008).
29. Zhang, W. & Dolan, M. E. Beyond the HapMap genotypic data: prospects of deep resequencing projects. Curr. Bioinformatics 3, 178-182 (2008).