Gene network exploration of crosstalk between apoptosis and autophagy in chronic myelogenous leukemia

BioMed Research International

Volumn 2015, Issue , 2015, Pages

  Wang, Fengfeng ^a   Cho, William C S ^b   Chan, Lawrence W C ^a   Wong, S C Cesar ^a   Tsui, Nancy B Y ^a   Siu, Parco M ^a   Yip, S P ^a   Yung, Benjamin Y M ^a  

^a HONG KONG POLYTECHNIC UNIVERSITY   (Hong Kong)

^b QUEEN ELIZABETH HOSPITAL   (Hong Kong)

Author keywords

[No Author keywords available]

Indexed keywords

AUTOPHAGY PROTEIN 5; BECLIN 1; MICRORNA; MICRORNA 15A; MYC PROTEIN; PHOSPHATIDYLINOSITOL 3 KINASE; PROTEIN BAD; PROTEIN BAX; PROTEIN BCL 2; PROTEIN KINASE B; PROTEIN MCL 1; TRANSCRIPTION FACTOR E2F; TUMOR PROTEIN;

APOPTOSIS; ARTICLE; AUTOPHAGY; CELL CYCLE PROGRESSION; CELL CYCLE REGULATION; CELL PROLIFERATION; CHRONIC MYELOID LEUKEMIA; CONTROLLED STUDY; GENE CONTROL; GENE EXPRESSION; GENE REGULATORY NETWORK; HEMATOPOIETIC STEM CELL; HUMAN; HUMAN CELL; MOLECULAR INTERACTION; BIOLOGICAL MODEL; COMPUTER SIMULATION; GENE EXPRESSION REGULATION; METABOLISM; PATHOLOGY; SIGNAL TRANSDUCTION;

APOPTOSIS; AUTOPHAGY; COMPUTER SIMULATION; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; LEUKEMIA, MYELOGENOUS, CHRONIC, BCR-ABL POSITIVE; MODELS, BIOLOGICAL; NEOPLASM PROTEINS; SIGNAL TRANSDUCTION;

EID: 84925307952     PISSN: 23146133     EISSN: 23146141     Source Type: Journal    
DOI: 10.1155/2015/459840     Document Type: Article

References (38)

1. C. Orelio, K. N. Harvey, C. Miles, R. A. J. Oostendorp, K. van der Horn, and E. Dzierzak, "The role of apoptosis in the development of AGMhematopoietic stemcells revealed by Bcl-2 overexpression, " Blood, vol. 103, no. 11, pp. 4084-4092, 2004.
2. M. Germain, A. P. Nguyen, J. N. leGrand et al., "MCL-1 is a stress sensor that regulates autophagy in a developmentally regulated manner, " The EMBO Journal, vol. 30, no. 2, pp. 395-407, 2011.
3. S. Cory and J. M. Adams, "The BCL2 family: regulators of the cellular life-or-death switch, " Nature Reviews Cancer, vol. 2, no. 9, pp. 647-656, 2002.
4. S. Y. Hsu and A. J. W. Hsueh, "Tissue-specific Bcl-2 protein partners in apoptosis: an ovarian paradigm, " Physiological Reviews, vol. 80, no. 2, pp. 593-614, 2000.
5. M. C. Maiuri, E. Zalckvar, A. Kimchi, and G. Kroemer, "Selfeating and self-killing: crosstalk between autophagy and apoptosis, " Nature Reviews Molecular Cell Biology, vol. 8, no. 9, pp. 741-752, 2007.
6. C. He and D. J. Klionsky, "Regulation mechanisms and signaling pathways of autophagy, " Annual Review of Genetics, vol. 43, pp. 67-93, 2009.
7. M. L. Howard and E. H. Davidson, "cis-regulatory control circuits in development, " Developmental Biology, vol. 271, no. 1, pp. 109-118, 2004.
8. T. Ideker, V. Thorsson, J. A. Ranish et al., "Integrated genomic and proteomic analyses of a systematically perturbedmetabolic network, " Science, vol. 292, no. 5518, pp. 929-934, 2001.
9. T. Ideker, O. Ozier, B. Schwikowski, and A. F. Siegel, "Discovering regulatory and signalling circuits in molecular interaction networks, " Bioinformatics, vol. 18, no. 1, pp. S233-S240, 2002.
10. D. P. Bartel, "MicroRNAs: genomics, biogenesis, mechanism, and function, " Cell, vol. 116, no. 2, pp. 281-297, 2004.
11. T. Liu, T. Papagiannakopoulos, K. Puskar et al., "Detection of a microRNA signal in an in vivo expression set of mRNAs, " PLoS ONE, vol. 2, no. 8, article e804, 2007.
12. L. L. Elo, H. Järvenpää, M. Oresic, R. Lahesmaa, and T. Aittokallio, "Systematic construction of gene coexpression networks with applications to human T helper cell differentiation process, " Bioinformatics, vol. 23, no. 16, pp. 2096-2103, 2007.
13. M. B. Eisen, P. T. Spellman, P. O. Brown, and D. Botstein, "Cluster analysis and display of genome-wide expression patterns, " Proceedings of the National Academy of Sciences of the United States of America, vol. 95, no. 25, pp. 14863-14868, 1998.
14. Y. Huang, H. Li, H. Hu et al., "Systematic discovery of functional modules and context-specific functional annotation of human genome, " Bioinformatics, vol. 23, no. 13, pp. i222-i229, 2007.
15. A. Ghazalpour, S. Doss, B. Zhang et al., "Integrating genetic and network analysis to characterize genes related tomouse weight, " PLoS Genetics, vol. 2, article e130, no. 8, 2006.
16. T. F. Fuller, A. Ghazalpour, J. E. Aten, T. A. Drake, A. J. Lusis, and S. Horvath, "Weighted gene coexpression network analysis strategies applied to mouse weight, " Mammalian Genome, vol. 18, no. 6-7, pp. 463-472, 2007.
17. S. Horvath and J. Dong, "Geometric interpretation of gene coexpression network analysis, " PLoS Computational Biology, vol. 4, no. 8, Article ID e1000117, 27 pages, 2008.
18. H. K. Lee, A. K. Hsu, J. Sajdak, J. Qin, and P. Pavlidis, "Coexpresion analysis of human genes across many microarray data sets, " Genome Research, vol. 14, no. 6, pp. 1085-1094, 2004.
19. E. Diaz-Blanco, I. Bruns, F. Neumann et al., "Molecular signature of CD34+ hematopoietic stem and progenitor cells of patients with CML in chronic phase, " Leukemia, vol. 21, no. 3, pp. 494-504, 2007.
20. E. Laurent, M. Talpaz, H. Kantarjian, and R. Kurzrock, "The BCR gene and Philadelphia chromosome-positive leukemogenesis, " Cancer Research, vol. 61, no. 6, pp. 2343-2355, 2001.
21. B. D. Aguda, Y. Kim, M. G. Piper-Hunter, A. Friedman, and C. B. Marsh, "MicroRNA regulation of a cancer network: consequences of the feedback loops involving miR-17-92, E2F, and Myc, " Proceedings of the National Academy of Sciences of the United States of America, vol. 105, no. 50, pp. 19678-19683, 2008.
22. K. Woods, J. M. Thomson, and S. M. Hammond, "Direct regulation of an oncogenic micro-RNA cluster by E2F transcription factors, " Journal of Biological Chemistry, vol. 282, no. 4, pp. 2130-2134, 2007.
23. S. Salesse and C. M. Verfaillie, "Mechanisms underlying abnormal trafficking and expansion of malignant progenitors in CML: BCR/ABL-induced defects in integrin function in CML, " Oncogene, vol. 21, no. 56, pp. 8605-8611, 2002.
24. L. Zhang, J. Huang, N. Yang et al., "Integrative genomic analysis of phosphatidylinositol 3-kinase family identifies PIK3R3 as a potential therapeutic target in epithelial ovarian cancer, " Clinical Cancer Research, vol. 13, no. 18, pp. 5314-5321, 2007.
25. N. Zhu, D. Zhang, H. Xie et al., "Endothelial-specific intronderived miR-126 is down-regulated in human breast cancer and targets both VEGFA and PIK3R2, " Molecular and Cellular Biochemistry, vol. 351, no. 1-2, pp. 157-164, 2011.
26. C. Behrends, M. E. Sowa, S. P. Gygi, and J. W. Harper, "Network organization of the human autophagy system, " Nature, vol. 466, no. 7302, pp. 68-76, 2010.
27. M. Affer, S. Dao, C. Liu et al., "Gene expression differences between enriched normal and chronic myelogenous leukemia quiescent stem/progenitor cells and correlations with biological abnormalities, " Journal of Oncology, vol. 2011, Article ID798592, 25 pages, 2011.
28. Q. Ding, X. He, J.-M. Hsu et al., "Degradation of Mcl-1 by-TrCP mediates glycogen synthase kinase 3-induced tumor suppression and chemosensitization, " Molecular and Cellular Biology, vol. 27, no. 11, pp. 4006-4017, 2007.
29. F. Wang, L. W. C. Chan, W. C. Cho et al., "Novel approach for coexpression analysis of E2F13 andMYC target genes in chronic myelogenous leukemia, " BioMed Research International, vol. 2014, Article ID 439840, 7 pages, 2014.
30. V. Batagelj and A. Mrvar, "Pajek-program for large network analysis, " 1997-1999.
31. C.-C. Liu, C.-C. Lin, W.-S. E. Chen et al., "CRSD: a comprehensive web server for composite regulatory signature discovery, " Nucleic Acids Research, vol. 34, pp. W571-W577, 2006.
32. Y. Sylvestre, V. De Guire, E. Querido et al., "An E2F/miR-20a autoregulatory feedback loop, " The Journal of Biological Chemistry, vol. 282, no. 4, pp. 2135-2143, 2007.
33. S. Yaari-Stark, M. Shaked, Y. Nevo-Caspi et al., "Ras inhibits endoplasmic reticulum stress in human cancer cells with amplifiedMyc, " International Journal of Cancer, vol. 126, no. 10, pp. 2268-2281, 2010.
34. N. Chen and V. Karantza-Wadsworth, "Role and regulation of autophagy in cancer, " Biochimica et Biophysica Acta, vol. 1793, no. 9, pp. 1516-1523, 2009.
35. K. A. O'Donnell, E. A. Wentzel, K. I. Zeller, C. V. Dang, and J. T. Mendell, "c-Myc-regulated microRNAs modulate E2F1 expression, " Nature, vol. 435, no. 7043, pp. 839-843, 2005.
36. I. Matsumura, H. Tanaka, and Y. Kanakura, "E2F1 and c-Myc in cell growth and death, " Cell Cycle, vol. 2, no. 4, pp. 333-338, 2003.
37. X. Liu, B. Zhang, Y. Guo et al., "Down-regulation of AP-4 inhibits proliferation, induces cell cycle arrest and promotes apoptosis in human gastric cancer cells, " PLoSONE, vol. 7, no. 5, Article ID e37096, 2012.
38. K. Machová Polaková, T. Lopotová, H. Klamová et al., "Expression patterns of microRNAs associated with CML phases and their disease related targets, " Molecular Cancer, vol. 10, article 41, 2011.