Engineered reversal of drug resistance in cancer cells-metastases suppressor factors as change agents

Nucleic Acids Research

Volumn 42, Issue 2, 2014, Pages 764-773

  Yadav, Vinod Kumar ^a   Kumar, Akinchan ^b   Mann, Anita ^b   Aggarwal, Suruchi ^a   Kumar, Maneesh ^b   Roy, Sumitabho Deb ^b   Pore, Subrata Kumar ^c   Banerjee, Rajkumar ^c   Mahesh Kumar, Jerald ^d   Thakur, Ram Krishna ^b   Chowdhury, Shantanu ^a,b  

^a GNR Knowledge Centre for Genome Informatics   (India)

^b CSIR INSTITUTE OF GENOMICS AND INTEGRATIVE BIOLOGY   (India)

^c INDIAN INSTITUTE OF CHEMICAL TECHNOLOGY   (India)

^d CENTRE FOR CELLULAR AND MOLECULAR BIOLOGY   (India)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIFUNGAL AGENT; CAMPTOTHECIN; CERULOMYCIN; SUPPRESSOR FACTOR; TOPOTECAN; TRANSCRIPTOME; UNCLASSIFIED DRUG;

ARTICLE; BREAST CANCER; CANCER CELL; CASE STUDY; CELL TYPE; CELL VIABILITY; DRUG RESPONSE; GENE EXPRESSION PROFILING; HUMAN; IN VIVO STUDY; METASTASIS; MOUSE; NONHUMAN; PRIORITY JOURNAL; SUPPRESSOR GENE; TUMOR GROWTH;

CELL ENGINEERING; CELL LINE, TUMOR; DRUG RESISTANCE, NEOPLASM; EPITHELIAL CELLS; GENE EXPRESSION PROFILING; GENES, TUMOR SUPPRESSOR; HUMANS; MESODERM; NEOPLASM METASTASIS; NEOPLASMS;

EID: 84893277269     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkt946     Document Type: Article

References (49)

1. Singh, A. and Settleman, J. (2010) EMT, cancer stem cells and drug resistance: an emerging axis of evil in the war on cancer. Oncogene, 29, 4741-4751.
2. Weinstein, J.N., Myers, T.G., O'Connor, P.M., Friend, S.H., Fornace, A.J. Jr, Kohn, K.W., Fojo, T., Bates, S.E., Rubinstein, L.V., Anderson, N.L. et al. (1997) An information-intensive approach to the molecular pharmacology of cancer. Science, 275, 343-349.
3. 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. et al. (2001) Chemosensitivity prediction by transcriptional profiling. Proc. Natl Acad. Sci. USA, 98, 10787-10792.
4. Iorio, F., Bosotti, R., Scacheri, E., Belcastro, V., Mithbaokar, P., Ferriero, R., Murino, L., Tagliaferri, R., Brunetti-Pierri, N., Isacchi, A. et al. (2010) Discovery of drug mode of action and drug repositioning from transcriptional responses. Proc. Natl Acad. Sci. USA, 107, 14621-14626.
5. Barretina, J., Caponigro, G., Stransky, N., Venkatesan, K., Margolin, A.A., Kim, S., Wilson, C.J., Lehar, J., Kryukov, G.V., Sonkin, D. et al. (2012) The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity. Nature, 483, 603-607.
6. Kutalik, Z., Beckmann, J.S. and Bergmann, S. (2008) A modular approach for integrative analysis of large-scale gene-expression and drug-response data. Nat. Biotechnol., 26, 531-539.
7. Lamb, J., Crawford, E.D., Peck, D., Modell, J.W., Blat, I.C., Wrobel, M.J., Lerner, J., Brunet, J.P., Subramanian, A., Ross, K.N. et al. (2006) The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease. Science, 313, 1929-1935.
8. Yauch, R.L. and Settleman, J. (2012) Recent advances in pathwaytargeted cancer drug therapies emerging from cancer genome analysis. Curr. Opin. Genet. Dev., 22, 45-49.
9. Garnett, M.J., Edelman, E.J., Heidorn, S.J., Greenman, C.D., Dastur, A., Lau, K.W., Greninger, P., Thompson, I.R., Luo, X., Soares, J. et al. (2012) Systematic identification of genomic markers of drug sensitivity in cancer cells. Nature, 483, 570-575.
10. Wacker, S.A., Houghtaling, B.R., Elemento, O. and Kapoor, T.M. (2012) Using transcriptome sequencing to identify mechanisms of drug action and resistance. Nat. Chem. Biol., 8, 235-237.
11. Singh, S.K., Clarke, I.D., Terasaki, M., Bonn, V.E., Hawkins, C., Squire, J. and Dirks, P.B. (2003) Identification of a cancer stem cell in human brain tumors. Cancer Res., 63, 5821-5828.
12. Thiery, J.P., Acloque, H., Huang, R.Y. and Nieto, M.A. (2009) Epithelial-mesenchymal transitions in development and disease. Cell, 139, 871-890.
13. Fidler, I.J. (2003) The pathogenesis of cancer metastasis: the 'seed and soil' hypothesis revisited. Nat. Rev. Cancer, 3, 453-458.
14. Hanahan, D. and Weinberg, R.A. (2011) Hallmarks of cancer: the next generation. Cell, 144, 646-674.
15. Nguyen, D.X., Bos, P.D. and Massague, J. (2009) Metastasis: from dissemination to organ-specific colonization. Nat. Rev. Cancer, 9, 274-284.
16. Horak, C.E., Lee, J.H., Marshall, J.C., Shreeve, S.M. and Steeg, P.S. (2008) The role of metastasis suppressor genes in metastatic dormancy. APMIS, 116, 586-601.
17. Shoushtari, A.N., Szmulewitz, R.Z. and Rinker-Schaeffer, C.W. (2011) Metastasis-suppressor genes in clinical practice: lost in translation Nat. Rev. Clin. Oncol., 8, 333-342.
18. Stinson, S.F., Alley, M.C., Kopp, W.C., Fiebig, H.H., Mullendore, L.A., Pittman, A.F., Kenney, S., Keller, J. and Boyd, M.R. (1992) Morphological and immunocytochemical characteristics of human tumor cell lines for use in a diseaseoriented anticancer drug screen. Anticancer Res., 12, 1035-1053.
19. Chiang, D.Y., Brown, P.O. and Eisen, M.B. (2001) Visualizing associations between genome sequences and gene expression data using genome-mean expression profiles. Bioinformatics, 17(Suppl. 1), S49-S55.
20. Saldanha, A.J. (2004) Java Treeview-extensible visualization of microarray data. Bioinformatics, 20, 3246-3248.
21. Goodarzi, H., Elemento, O. and Tavazoie, S. (2009) Revealing global regulatory perturbations across human cancers. Mol. Cell, 36, 900-911.
22. Storey, J.D. and Tibshirani, R. (2003) Statistical significance for genomewide studies. Proc. Natl Acad. Sci. USA, 100, 9440-9445.
23. Hurst, D.R. and Welch, D.R. (2011) Metastasis suppressor genes at the interface between the environment and tumor cell growth. Int. Rev. Cell Mol. Biol., 286, 107-180.
24. Yoshida, B.A., Sokoloff, M.M., Welch, D.R. and Rinker-Schaeffer, C.W. (2000) Metastasis-suppressor genes: a review and perspective on an emerging field. J. Natl Cancer Inst., 92, 1717-1730.
25. Konishi, N., Nakaoka, S., Tsuzuki, T., Matsumoto, K., Kitahori, Y., Hiasa, Y., Urano, T. and Shiku, H. (1993) Expression of nm23-H1 and nm23-H2 proteins in prostate carcinoma. Jpn. J. Cancer Res., 84, 1050-1054.
26. Marone, M., Scambia, G., Ferrandina, G., Giannitelli, C., edetti-Panici, P., Iacovella, S., Leone, A. and Mancuso, S. (1996) Nm23 expression in endometrial and cervical cancer: inverse correlation with lymph node involvement and myometrial invasion. Br. J. Cancer, 74, 1063-1068.
27. McDermott, W.G., Boissan, M., Lacombe, M.L., Steeg, P.S. and Horak, C.E. (2008) Nm23-H1 homologs suppress tumor cell motility and anchorage independent growth. Clin. Exp. Metastasis, 25, 131-138.
28. Miyazaki, H., Fukuda, M., Ishijima, Y., Takagi, Y., Iimura, T., Negishi, A., Hirayama, R., Ishikawa, N., Amagasa, T. and Kimura, N. (1999) Overexpression of nm23-H2/NDP kinase B in a human oral squamous cell carcinoma cell line results in reduced metastasis, differentiated phenotype in the metastatic site, and growth factor-independent proliferative activity in culture. Clin. Cancer Res., 5, 4301-4307.
29. Sriram, D., Yogeeswari, P., Thirumurugan, R. and Bal, T.R. (2005) Camptothecin and its analogues: a review on their chemotherapeutic potential. Nat. Prod. Res., 19, 393-412.
30. Ciocca, D.R., Fuqua, S.A., Lock-Lim, S., Toft, D.O., Welch, W.J. and McGuire, W.L. (1992) Response of human breast cancer cells to heat shock and chemotherapeutic drugs. Cancer Res., 52, 3648-3654.
31. He, B.C., Gao, J.L., Zhang, B.Q., Luo, Q., Shi, Q., Kim, S.H., Huang, E., Gao, Y., Yang, K., Wagner, E.R. et al. (2011) Tetrandrine inhibits Wnt/beta-catenin signaling and suppresses tumor growth of human colorectal cancer. Mol. Pharmacol., 79, 211-219.
32. Bachmeier, B., Fichtner, I., Killian, P.H., Kronski, E., Pfeffer, U. and Efferth, T. (2011) Development of resistance towards artesunate in MDA-MB-231 human breast cancer cells. PLoS One, 6, e20550.
33. Takagi, S., Simizu, S. and Osada, H. (2009) RECK negatively regulates matrix metalloproteinase-9 transcription. Cancer Res., 69, 1502-1508.
34. Knox, C., Law, V., Jewison, T., Liu, P., Ly, S., Frolkis, A., Pon, A., Banco, K., Mak, C., Neveu, V. et al. (2011) DrugBank 3.0: a comprehensive resource for 'omics' research on drugs. Nucleic Acids Res., 39, D1035-D1041.
35. Subramanian, A., Tamayo, P., Mootha, V.K., Mukherjee, S., Ebert, B.L., Gillette, M.A., Paulovich, A., Pomeroy, S.L., Golub, T.R., Lander, E.S. et al. (2005) Gene set enrichment analysis: a knowledge-based approach for interpreting genomewide expression profiles. Proc. Natl Acad. Sci. USA, 102, 15545-15550.
36. Saxena, M., Stephens, M.A., Pathak, H. and Rangarajan, A. (2011) Transcription factors that mediate epithelial-mesenchymal transition lead to multidrug resistance by upregulating ABC transporters. Cell Death Dis., 2, e179.
37. Yin, L., Castagnino, P. and Assoian, R.K. (2008) ABCG2 expression and side population abundance regulated by a transforming growth factor beta-directed epithelial-mesenchymal transition. Cancer Res., 68, 800-807.
38. Sethi, N. and Kang, Y. (2011) Unravelling the complexity of metastasis-molecular understanding and targeted therapies. Nat. Rev. Cancer, 11, 735-748.
39. Boersma, B.J., Reimers, M., Yi, M., Ludwig, J.A., Luke, B.T., Stephens, R.M., Yfantis, H.G., Lee, D.H., Weinstein, J.N. and Ambs, S. (2008) A stromal gene signature associated with inflammatory breast cancer. Int. J. Cancer, 122, 1324-1332.
40. Calabro, A., Beissbarth, T., Kuner, R., Stojanov, M., Benner, A., Asslaber, M., Ploner, F., Zatloukal, K., Samonigg, H., Poustka, A. et al. (2009) Effects of infiltrating lymphocytes and estrogen receptor on gene expression and prognosis in breast cancer. Breast Cancer Res.Treat., 116, 69-77.
41. Denkert, C., Budczies, J., rb-Esfahani, S., Gyorffy, B., Sehouli, J., Konsgen, D., Zeillinger, R., Weichert, W., Noske, A., Buckendahl, A.C. et al. (2009) A prognostic gene expression index in ovarian cancer-validation across different independent data sets. J. Pathol., 218, 273-280.
42. Hatzis, C., Pusztai, L., Valero, V., Booser, D.J., Esserman, L., Lluch, A., Vidaurre, T., Holmes, F., Souchon, E., Wang, H. et al. (2011) A genomic predictor of response and survival following taxane-anthracycline chemotherapy for invasive breast cancer. JAMA, 305, 1873-1881.
43. Landi, M.T., Dracheva, T., Rotunno, M., Figueroa, J.D., Liu, H., Dasgupta, A., Mann, F.E., Fukuoka, J., Hames, M., Bergen, A.W. et al. (2008) Gene expression signature of cigarette smoking and its role in lung adenocarcinoma development and survival. PLoS One, 3, e1651.
44. Loboda, A., Nebozhyn, M.V., Watters, J.W., Buser, C.A., Shaw, P.M., Huang, P.S., Van't, V.L., Tollenaar, R.A., Jackson, D.B., Agrawal, D. et al. (2011) EMT is the dominant program in human colon cancer. BMC. Med. Genomics, 4, 9.
45. Meyniel, J.P., Cottu, P.H., Decraene, C., Stern, M.H., Couturier, J., Lebigot, I., Nicolas, A., Weber, N., Fourchotte, V., Alran, S. et al. (2010) A genomic and transcriptomic approach for a differential diagnosis between primary and secondary ovarian carcinomas in patients with a previous history of breast cancer. BMC Cancer, 10, 222.
46. Raponi, M., Zhang, Y., Yu, J., Chen, G., Lee, G., Taylor, J.M., Macdonald, J., Thomas, D., Moskaluk, C., Wang, Y. et al. (2006) Gene expression signatures for predicting prognosis of squamous cell and adenocarcinomas of the lung. Cancer Res., 66, 7466-7472.
47. Smith, J.J., Deane, N.G., Wu, F., Merchant, N.B., Zhang, B., Jiang, A., Lu, P., Johnson, J.C., Schmidt, C., Bailey, C.E. et al. (2010) Experimentally derived metastasis gene expression profile predicts recurrence and death in patients with colon cancer. Gastroenterology, 138, 958-968.
48. Takeuchi, T., Tomida, S., Yatabe, Y., Kosaka, T., Osada, H., Yanagisawa, K., Mitsudomi, T. and Takahashi, T. (2006) Expression profile-defined classification of lung adenocarcinoma shows close relationship with underlying major genetic changes and clinicopathologic behaviors. J. Clin. Oncol., 24, 1679-1688.
49. Tothill, R.W., Tinker, A.V., George, J., Brown, R., Fox, S.B., Lade, S., Johnson, D.S., Trivett, M.K., Etemadmoghadam, D., Locandro, B. et al. (2008) Novel molecular subtypes of serous and endometrioid ovarian cancer linked to clinical outcome. Clin. Cancer Res., 14, 5198-5208.