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Research Article

Cancer Pharmacogenomics: DNA Genotyping and Gene Expression Profiling to Identify Molecular Determinants of Chemosensitivity

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Pages 303-315 | Published online: 09 Oct 2008

REFERENCES

  • Bieche I., Laurendeau I., Tozlu S., Olivi M., Vidaud D., Lidereau R., Vidaud M. Quantitation of MYC gene expression in sporadic breast tumors with a real-time reverse transcription-PCR assay. Cancer Res. 1999; 59: 2759–2765
  • Bild A. H., Yao G., Chang J. T., Wang W., Potti A., Chasse D., Joshi M.-B., Harpole D., Lancaster J. M., Berchuck A., Olson J. A., Marks J. R., Dressman H. K., West M., Nevins J. R. Oncogenic pathway signatures in human cancers as a guide to targeted therapies. Nature 2006; 439: 353–357
  • Borgna J. L., Rochefort H. Hydroxylated metabolites of tamoxifen are formed in vivo and bound to estrogen receptor in target tissues. J. Biol. Chem. 1981; 256: 859–868
  • Bussey K. J., Chin K., Lababidi S., Reimers M., Reinhold W. C., Kuo W.-L., Gwadry F., Ajay F., Kouros-Mehr H., Fridlyand J., Jain A., Collins C., Nishizuka S., Tonon G., Roschke A., Gehlhaus K., Kirsch I., Scudiero D. A., Gray J. W., Weinstein J. N. Integrating data on DNA copy number with gene expression levels and drug sensitivities in the NCI-60 cell line panel. Mol. Cancer Ther. 2006; 5: 853–867
  • Buyse M., Loi S., van't Veer L., Viale G., Delorenzi M., Glas A. M., Saghatchian d'Assignies M., Bergh J., Lidereau R., Ellis P., Harris A., Bogaerts J., Therasse P., Floore A., Amakrane M., Piette F., Rutgers E., Sotiriou C., Cardoso F., Piccart M. J. Validation and clinical utility of a 70-gene prognostic signature for women with node-negative breast cancer. J. Natl. Cancer Inst. 2006; 98: 1183–1192
  • Capizzi R. L., Bertino J. R., Handschumacher R. E. L-asparaginase. Annu. Rev. Med. 1970; 21: 433–444
  • Chang J. C., Wooten E. C., Tsimelzon A., Hilsenbeck S. G., Gutierrez M. C., Elledge R., Mohsin S., Osborne C. K., Chamness G. C., Allred D. C., O'Connell P. Gene expression profiling for the prediction of therapeutic response to docetaxel in patients with breast cancer. Lancet 2003; 362: 362–369
  • Cooney D. A., Handschumacher R. E. L-asparaginase and L-asparagine metabolism. Annu. Rev. Pharmacol. 1970; 10: 421–440
  • Cronin M., Pho M., Dutta D., Stephans J. C., Shak S., Kiefer M. C., Esteban J. M., Baker J. B. Measurement of gene expression in archival paraffin-embedded tissues: development and performance of a 92-gene reverse transcriptase-polymerase chain reaction assay. Am. J. Pathol. 2004; 164: 35–42
  • Desta Z., Ward B. A., Soukhova N. V., Flockhart D. A. Comprehensive evaluation of tamoxifen sequential biotransformation by the human cytochrome P450 system in vitro: prominent roles for CYP3A and CYP2D6. J. Pharmacol. Exp. Ther. 2004; 310: 1062–1075
  • Dolan M. E., Newbold K. G., Nagasubramanian R., Wu X., Ratain M. J., Cook E. H., Jr., Badner J. A. Heritability and linkage analysis of sensitivity to cisplatin-induced cytotoxicity. Cancer Res. 2004; 64: 4353–4356
  • Early Breast Cancer Trialists’ Collaboration Group (EBCTCG). Effects of chemotherapy and hormonal therapy for early breast cancer on recurrence and 15-year survival: an overview of the randomised trials. Lancet 2005; 365: 1687–1717
  • Glas A. M., Floore A., Delahaye L. J., Witteveen A. T., Pover R. C., Bakx N, Lahti-Domenici J. S., Bruinsma T. J., Warmoes M. O., Bernards R., Wessels L. F., Van't Veer L. J. Converting a breast cancer microarray signature into a high-throughput diagnostic test. BMC Genomics 2006; 7: 278
  • Goekkurt E., Hoehn S., Wolschke C., Wittmer C., Stueber C., Hossfeld D. K., Stoehlmacher J. Polymorphisms of glutathione S-transferases (GST) and thymidylate synthase (TS)--novel predictors for response and survival in gastric cancer patients. Br. J. Cancer 2006; 94: 281–286
  • Goetz M. P., Kamal A., Ames M. M. Tamoxifen pharmacogenomics: the role of CYP2D6 as a predictor of drug response. Clin. Pharmacol. Ther. 2007, (In press, DOI: 10.1038/sj.clpt.6100367.)
  • Goetz M. P., Knox S. K., Suman V. J., Rae J. M., Safgren S. L., Ames M. M., Visscher D. W., Reynolds C., Couch F. J., Lingle W. L., Weinshilboum R. M., Fritcher E. G., Nibbe A. M., Desta Z., Nguyen A., Flockhart D. A., Perez E. A., Ingle J. N. The impact of cytochrome P450 2D6 metabolism in women receiving adjuvant tamoxifen. Breast Cancer Res. Treat. 2007; 101: 113–121
  • Goetz M. P., Rae J. M., Suman V. J., Safgren S. L., Ames M. M., Visscher D. W., Reynolds C., Couch F. J., Lingle W. L., Flockhart D. A., Desta Z., Perez E. A., Ingle J. N. Pharmacogenetics of tamoxifen biotransformation is associated with clinical outcomes of efficacy and hot flashes. J. Clin. Oncol. 2005; 23: 9312–9318
  • Horie N., Aiba H., Oguro K., Hojo H., Takeishi K. Functional analysis and DNA polymorphism of the tandemly repeated sequences in the 5′-terminal regulatory region of the human gene for thymidylate synthase. Cell Struct. Funct. 1995; 20: 191–197
  • Howell A., Cuzick J., Baum M., Buzdar A., Dowsett M., Forbes J. F., Hoctin-Boes G., Houghton J., Locker G. Y., Tobias J. S. Results of the ATAC (Arimidex, Tamoxifen, Alone or in Combination) trial after completion of 5 years’ adjuvant treatment for breast cancer. Lancet 2005; 365: 60–62
  • Huang R. S., Duan A., Shukla S. J., Kistner E. O., Clark T. A., Chen T. X., Schweitzer A. C., Blume J. E., Dolan M. E. Identification of genetic variants contributing to cisplatin-induced cytotoxicity by use of a genomewide approach. Am. J. Hum. Genet. 2007; 81: 427–437
  • Ingle J. N., Suman V. J., Mailliard J. A., Kugler J. W., Krook J. E., Michalak J. C., Pisansky T. M., Wold L. E., Donohue J. H., Goetz M. P., Perez E. A. Randomized trial of tamoxifen alone or combined with fluoxymesterone as adjuvant therapy in postmenopausal women with resected estrogen receptor positive breast cancer. North Central Cancer Treatment Group Trial 89-30-52. Breast Cancer Res. Treat. 2006; 98: 217–222
  • Jin Y., Desta Z., Stearns V., Ward B., Ho H., Lee K. H., Skaar T., Storniolo A. M., Li L., Araba A., Blanchard R., Nguyen A., Ullmer L., Hayden J., Lemler S., Weinshilboum R. M., Rae J. M., Hayes D. F., Flockhart D. A. CYP2D6 genotype, antidepressant use, and tamoxifen metabolism during adjuvant breast cancer treatment. J. Natl. Cancer Inst. 2005; 97: 30–39
  • Johnson M. D., Zuo H., Lee K. H, Trebley J. P., Rae J. M., Weatherman R. V., Desta Z., Flockhart D. A., Skaar T. C. Pharmacological characterization of 4‐hydroxy-N-desmethyl tamoxifen, a novel active metabolite of tamoxifen. Breast Cancer Res. Treat. 2004; 85: 151–159
  • Johnston P. G., Mick R., Recant W., Behan K. A., Dolan M. E., Ratain M. J., Beckmann E., Weichselbaum R. R., Allegra C. J., Vokes E. E. Thymidylate synthase expression and response to neoadjuvant chemotherapy in patients with advanced head and neck cancer. J. Natl. Cancer Inst. 1997; 89: 308–313
  • Kawakami K., Omura K., Kanehira E., Watanabe Y. Polymorphic tandem repeats in the thymidylate synthase gene is associated with its protein expression in human gastrointestinal cancers. Anticancer Res. 1999; 19: 3249–3252
  • Kobayashi S., Boggon T. J., Dayaram T., Janne P. A., Kocher O., Meyerson M., Johnson B. E., Eck M. J., Tenen D. G., Halmos B. EGFR mutation and resistance of non-small-cell lung cancer to gefitinib. N. Engl. J. Med. 2005; 352: 786–792
  • Kristiansen G., Yu Y., Petersen S., Kaufmann O., Schluns K., Dietel M., Petersen I. Overexpression of c-erbB2 protein correlates with disease-stage and chromosomal gain at the c-erbB2 locus in non-small cell lung cancer. Eur. J. Cancer 2001; 37: 1089–1095
  • Lee J. K., Havaleshko D. M., Cho H., Weinstein J. N., Kaldjian E. P., Karpovich J., Grimshaw A., Theodorescu D. A strategy for predicting the chemosensitivity of human cancers and its application to drug discovery. Proc. Natl. Acad. Sci. USA 2007; 104: 13086–13091
  • Lim H.-S., Ju Lee H., Seok Lee K., Sook Lee E., Jang I.-J., Ro J. Clinical implications of CYP2D6 genotypes predictive of tamoxifen pharmacokinetics in metastatic breast cancer. J. Clin. Oncol. 2007; 25: 3837–3845
  • Lonning P. E., Lien E. A., Lundgren S., Kvinnsland S. Clinical pharmacokinetics of endocrine agents used in advanced breast cancer. Clin. Pharmacokinet. 1992; 22: 327–358
  • Lynch T. J., Bell D. W., Sordella R, Gurubhagavatula S., Okimoto R. A., Brannigan B. W., Harris P. L., Haserlat S. M., Supko J. G., Haluska F. G., Louis D. N., Christiani D. C., Settleman J., Haber D. A. Activating mutations in the epidermal growth factor receptor underlying responsiveness of non-small-cell lung cancer to gefitinib. N. Engl. J. Med. 2004; 350: 2129–2139
  • Ma X. J., Wang Z., Ryan P. D., Isakoff S. J., Barmettler A., Fuller A., Muir B., Mohapatra G., Salunga R., Tuggle J. T., Tran Y., Tran D., Tassin A., Amon P., Wang W., Wang W., Enright E., Stecker K., Estepa-Sabal E., Smith B., Younger J., Balis U., Michaelson J., Bhan A., Habin K., Baer T. M., Brugge J., Haber D. A., Erlander M. G., Sgroi D. C. A two-gene expression ratio predicts clinical outcome in breast cancer patients treated with tamoxifen. Cancer Cell 2004; 5: 607–616
  • Martin Y. N., Salavaggione O. E., Eckloff B. W., Wieben E. D., Schaid D. J., Weinshilboum R. M. Human methylenetetrahydrofolate reductase pharmacogenomics: gene resequencing and functional genomics. Pharmacogenet. Genomics 2006; 16: 265–277
  • Mathijssen R. H., Marsh S., Karlsson M. O., Xie R., Baker S. D., Verweij J., Sparreboom A., McLeod H. L. Irinotecan pathway genotype analysis to predict pharmacokinetics. Clin. Cancer Res. 2003; 9: 3246–3253
  • Paik S., Shak S., Tang G., Kim C., Baker J., Cronin M., Baehner F. L., Walker M. G., Watson D., Park T., Hiller W., Fisher E. R., Wickerham D. L., Bryant J., Wolmark N. A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer. N. Engl. J. Med. 2004; 351: 2817–2826
  • Paik S., Tang G., Shak S., Kim C., Baker J., Kim W., Cronin M., Baehner F. L., Watson D., Bryant J., Costantino J. P., Geyer C. E., Jr., Wickerham D. L., Wolmark N. Gene expression and benefit of chemotherapy in women with node-negative, estrogen receptor-positive breast cancer. J. Clin. Oncol. 2006; 24: 3726–3734
  • Potti A., Dressman H. K., Bild A., Riedel R. F., Chan G., Sayer R., Cragun J., Cottrill H., Kelley M. J., Petersen R., Harpole D., Marks J., Berchuck A., Ginsburg G. S., Febbo P., Lancaster J., Nevins J. R. Genomic signatures to guide the use of chemotherapeutics. Nat. Med. 2006; 12: 1294–1300
  • Pui C.-H., Evans W. E. Acute Lymphoblastic Leukemia.. N Engl. J. Med. 1998; 339: 605–615
  • Pui C.-H., Sandlund J. T., Pei D., Campana D., Rivera G. K., Ribeiro R. C., Rubnitz J. E., Razzouk B. I., Howard S. C., Hudson M. M., Cheng C., Kun L. E., Raimondi S. C., Behm F. G., Downing J. R., Relling M. V., Evans W. E. Improved outcome for children with acute lymphoblastic leukemia: results of Total Therapy Study XIIIB at St Jude Children's Research Hospital. Blood 2004; 104: 2690–2696
  • Pui C. H., Gaynon P. S., Boyett J. M., Chessells J. M., Baruchel A., Kamps W., Silverman L. B., Biondi A., Harms D. O., Vilmer E., Schrappe M., Camitta B. Outcome of treatment in childhood acute lymphoblastic leukaemia with rearrangements of the 11q23 chromosomal region. Lancet 2002; 359: 1909–1915
  • Rocha J. C. C., Cheng C., Liu W., Kishi S., Das S., Cook E. H., Sandlund J. T., Rubnitz J., Ribeiro R., Campana D., Pui C.-H., Evans W. E., Relling M. V. Pharmacogenetics of outcome in children with acute lymphoblastic leukemia. Blood 2005; 105: 4752–4758
  • Ross D. T., Scherf U., Eisen M. B., Perou C. M., Rees C., Spellman P., Iyer V., Jeffrey S. S., Van de Rijn M., Waltham M., Pergamenschikov A., Lee J. C. F., Lashkari D., Shalon D., Myers T. G., Weinstein J. N., Botstein D., Brown P. O. Systematic variation in gene expression patterns in human cancer cell lines. Nat. Genet. 2000; 24: 227–235
  • Scherf U., Ross D. T., Waltham M., Smith L. H., Lee J. K., Tanabe L., Kohn K. W., Reinhold W. C., Myers T. G., Andrews D. T., Scudiero D. A., Eisen M. B., Sausville E. A., Pommier Y., Botstein D., Brown P. O., AWeinstein J. N. A gene expression database for the molecular pharmacology of cancer. Nat. Genet. 2000; 24: 236–244
  • Staunton J. E., Slonim D. K., Coller H. A., Tamayo P., Angelo M. J., Park J., Scherf U., Lee J. K., Reinhold W. O., Weinstein J. N., Mesirov J. P., Lander E. S., Golub T. R. Chemosensitivity prediction by transcriptional profiling. Proc. Natl. Acad. Sci. USA 2001; 98: 10787–10792
  • Stearns V., Johnson M. D., Rae J. M., Morocho A., Novielli A., Bhargava P., Hayes D. F., Desta Z., Flockhart D. A. Active tamoxifen metabolite plasma concentrations after coadministration of tamoxifen and the selective serotonin reuptake inhibitor paroxetine. J. Natl. Cancer Inst. 2003; 95: 1758–1764
  • Thurlimann B., Keshaviah A., Coates A. S., Mouridsen H., Mauriac L., Forbes J. F., Paridaens R., Castiglione-Gertsch M., Gelber R. D., Rabaglio M., Smith I., Wardley A., Price K. N., Goldhirsch A. A comparison of letrozole and tamoxifen in postmenopausal women with early breast cancer. N. Engl. J. Med. 2005; 353: 2747–2757
  • Townsend D. M., Tew K. D. The role of glutathione-S-transferase in anti-cancer drug resistance. Oncogene 2003; 22: 7369–7375
  • van't Veer L. J., Dai H., van de Vijver M. J., He Y. D., M. Hart A. A., Mao M., Peterse H. L., van der Kooy K., Marton M. J., Witteveen A. T., Schreiber G. J., M K. R., Roberts C., Linsley P. S., Bernards R., Friend S. H. Gene expression profiling predicts clinical outcome of breast cancer. Nature 2002; 415: 530–536
  • van de Vijver M. J., He Y. D., van ’t Veer L. J., Dai H., Hart A. A. M., Voskuil D. W., Schreiber G. J., Peterse J. L., Roberts C., Marton M. J., Parrish M, Atsma D., Witteveen A., Glas A., Delahaye L., van der Velde T., Bartelink H., Rodenhuis S., Rutgers E. T., Friend S. H., Bernards R. A gene-expression signature as a predictor of survival in breast cancer. N. Engl. J. Med. 2002; 347: 1999–2009
  • Watters J. W., Kraja A., Meucci M. A., Province M. A., McLeod H. L. Genome-wide discovery of loci influencing chemotherapy cytotoxicity. Proc. Natl. Acad. Sci. USA 2004; 101: 11809–11814

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