Network-based identification of novel connections among apoptotic signaling pathways in cancer

Applied Biochemistry and Biotechnology

Volumn 167, Issue 3, 2012, Pages 621-631

  Wang, Nan ^a   Xu, Huai Long ^a   Zhao, Xu ^a   Wen, Xin ^a   Wang, Feng Tian ^a   Wang, Shu Ya ^a   Fu, Lei Lei ^a   Liu, Bo ^a   Bao, Jin Ku ^a  

^a SICHUAN UNIVERSITY   (China)

Author keywords

Apoptosis; Cancer; MicroRNA (miRNA); Na ve Bayesian model; Protein protein interaction (PPI) network

Indexed keywords

APOPTOTIC; APOPTOTIC PATHWAYS; APOPTOTIC SIGNALING; BAYESIAN MODEL; CANCER; DATA SETS; FUNCTIONAL CONNECTION; HIGH-THROUGHPUT; HUB PROTEINS; HUMAN CANCER; MICRORNA (MIRNA); MICRORNAS; NETWORK-BASED; ONLINE DATABASE; PROTEIN-PROTEIN INTERACTION NETWORKS;

BAYESIAN NETWORKS; CELL DEATH; PROTEINS; RNA;

DISEASES;

CYCLIN DEPENDENT KINASE 2; CYCLIN DEPENDENT KINASE 6; MICRORNA; MITOGEN ACTIVATED PROTEIN KINASE KINASE KINASE; PROTEIN P53; TRANSFORMING GROWTH FACTOR BETA RECEPTOR 1; TRANSFORMING GROWTH FACTOR BETA RECEPTOR 2; TUMOR NECROSIS FACTOR RECEPTOR;

AMINO ACID SEQUENCE; APOPTOSIS; ARTICLE; BAYES THEOREM; CELL CYCLE; DATA BASE; GENOMICS; HELA CELL; HUMAN; HUMAN CELL; MODEL; MOLECULAR INTERACTION; NEOPLASM; ONCOGENE; ONLINE SYSTEM; PREDICTION; PROTEIN FAMILY; PROTEIN PROTEIN INTERACTION; TUMOR SUPPRESSOR GENE;

APOPTOSIS; APOPTOSIS REGULATORY PROTEINS; COMPUTATIONAL BIOLOGY; HUMANS; MICRORNAS; NEOPLASMS; PROTEIN INTERACTION MAPS; PROTO-ONCOGENE PROTEINS PP60(C-SRC); SIGNAL TRANSDUCTION; TUMOR SUPPRESSOR PROTEIN P53;

EID: 84863720452     PISSN: 02732289     EISSN: 15590291     Source Type: Journal    
DOI: 10.1007/s12010-012-9704-x     Document Type: Article

References (47)

1. Hanahan, D., & Weinberg, R. A. (2011). Cell, 144(5), 646-674.
2. Cotter, T. G. (2009). Nature Reviews. Cancer, 9(7), 501-507.
3. Ghobrial, I. M., Witzig, T. E., & Adjei, A. A. (2005). CA: A Cancer Journal for Clinicians,55(3), 178-194.
4. Pieroni, E., Van Bentem, S. D., Mancosu, G., Capobianco, E., Hirt, H., & de la Fuente, A. (2008). Proteomics, 8(4), 799-816.
5. Laubenbacher, R., Hower, V., Jarrah, A., Torti, S. V., Shulaev, V., Mendes, P., et al. (2009). Biochimica et Biophysica Acta, 1796(2), 129-139.
6. Garzon, R., Marcucci, G., & Croce, C. M. (2010). Nature Reviews. Drug Discovery, 9(10), 775-789.
7. Li, C., Feng, Y., Coukos, G., & Zhang, L. (2009). The AAPS Journal, 11(4), 747-757.
8. Garzon, R., Calin, G. A., & Croce, C. M. (2009). Annual Review of Medicine, 60, 167-179.
9. Lima, R. T., Busacca, S., Almeida, G. M., Gaudino, G., Fennell, D. A., & Vasconcelos, M. H.(2011). European Journal of Cancer, 47(2), 163-174.
10. Esquela-Kerscher, A., & Slack, F. J. (2006). Nature Reviews. Cancer, 6(4), 259-269.
11. Nikolov, S., Vera, J., Schmitz, U., & Wolkenhauer, O. (2011). Theory in Biosciences, 130(1), 55-69.
12. Aguda, B. D., Kim, Y., Piper-Hunter, M. G., Friedman, A., & Marsh, C. B. (2008). Proceedings of the National Academy of Sciences of the United States of America, 105(50), 19678-19783.
13. Farazi, T. A., Spitzer, J. I., Morozov, P., & Tuschl, T. (2011). The Journal of Pathology, 223, 102-115.
14. Babashah, S., & Soleimani, M. (2011). European Journal of Cancer, 47(8), 1127-1137.
15. Wang, Y., & Lee, C. G. (2009). Journal of Cellular and Molecular Medicine, 13(1), 12-23.
16. Zotenko, E., Mestre, J., O'Leary, D. P., & Przytycka, T. M. (2008). PLoS Computational Biology, 4(8), e1000140.
17. Mishra, G. R., Suresh, M., Kumaran, K., Kannabiran, N., Suresh, S., Bala, P., et al. (2006). Nucleic Acids Research, 34, D411-D414.
18. Alfarano, C., Andrade, C. E., Anthony, K., Bahroos, N., Bajec, M., Bantoft, K., et al. (2005). Nucleic Acids Research, 33, D418-D424.
19. Xenarios, I., Salwinski, L., Duan, X. J., Higney, P., Kim, S. M., & Eisenberg, D. (2002). Nucleic Acids Research, 30(1), 303-305.
20. Mewes, H. W., Frishman, D., Gruber, C., Geier, B., Haase, D., & Kaps, A. (2000). Nucleic Acids Research, 28(1), 37-40.
21. Kerrien, S., Alam-Faruque, Y., Aranda, B., Bancarz, I., Bridge, A., Derow, C., et al. (2007). Nucleic Acid Research, 35, D561-D565.
22. Murray, J. I., Whitfield, M. L., Trinklein, N. D., Myers, R. M., Brown, P. O., & Botstein, D. (2004). Molecular Biology of the Cell, 15(5), 2361-2374.
23. Finn, R. D., Tate, J., Mistry, J., Coggill, P. C., Sammut, S. J., Hotz, H. R., et al. (2008). Nucleic Acids Research, 32, D138-D141.
24. Yellaboina, S., Tasneem, A., Zaykin, D. V., Raghavachari, B., & Jothi, R. (2011). Nucleic Acids Research, 39(Database issue), D730-D735.
25. Li, X., Cai, H., Xu, J., Ying, S., & Zhang, Y. (2010). Amino Acids, 38(4), 1237-1252.
26. Barabasi, A. L., & Oltvai, Z. N. (2004). Nature Reviews Genetics, 5(2), 101-113.
27. Friedman, R. C., Farh, K. K., Burge, C. B., & Bartel, D. P. (2009). Genome Research, 19(1), 92-105.
28. Lall, S., Grun, D., Krek, A., Chen, K., Wang, Y. L., Dewey, C. N., et al. (2006). Current Biology, 16(5)
29. Maragkakis, M., Alexiou, P., Papadopoulos, G. L., Reczko, M., Dalamagas, T., Giannopoulos, G., et al. (2009). BMC Bioinformatics, 10, 295.
30. Wang, S. Y., Yu, Q. J., Zhang, R. D., & Liu, B. (2011). The International Journal of Biochemistry & Cell Biology, 43(9), 1263-1266.
31. Lavrik, I. N. (2010). Current Opinion in Biotechnology, 21(4), 551-555.
32. Chu, L. H., & Chen, B. S. (2008). BMC Systems Biology, 2, 56.
33. Di Pietro, C., Ragusa, M., Barbagallo, D., Duro, L. R., Guglielmino, M. R., Majorana, A., et al. (2008). BMC Medical Genomics, 2, 20.
34. Hsu, C. W., Juan, H. F., & Huang, H. C. (2008). Proteomics, 8(10), 1975-1979.
35. Sarker, R., Bandyopadhyay, S., & Maulik, U. (2011). Current Bioinformatics, 6(1), 129-143.
36. Liang, H., & Li, W. H. (2007). RNA, 13(9), 1402-1408.
37. Chari, N. S., Pinaire, N. L., Thorpe, L., Medeiros, L. J., Routbort, M. J., & McDonnell, T. J. (2009). Apoptosis, 14(4), 336-347.
38. Lahav, G., Rosenfeld, N., Sigal, A., Geva-Zatorsky, N., Levine, A. J., & Alon, U. (2004). Nature Genetics, 36(2), 147-150.
39. Wee, K. B., & Aguda, B. D. (2006). Biophysical Journal, 91(3), 857-865.
40. Wee, K. B., Surana, U., & Aguda, B. D. (2009). PLoS ONE, 4(2), e4407.
41. Caino, M. C., Meshki, J., & Kazanietz, M. G. (2009). Apoptosis, 14(4), 392-408.
42. Chappell, J. H., Jr., Wang, X. D., & Loeken, M. R. (2009). Apoptosis, 14(12), 1472-1483.
43. Nakamura, T., & Lipton, S. A. (2009). Apoptosis, 14(4), 455-468.
44. Liu, B., Cheng, Y., Liu, Q., Bao, J. K., & Yang, J. M. (2010). Acta Pharmacologica Sinica, 31(9), 1154-1164.
45. Liu, J. J., Mou, L., Yu, J. Y., Liu, B., & Bao, J. K. (2011). Cancer Letters, 300(2), 105-114.
46. Fu, L. L., Wen, X., Bao, J. K., & Liu, B. (2012). The International Journal of Biochemistry & Cell Biology, 44(5), 733-736. doi:10.1016/j. biocel.2012.02.004.
47. Wen, X., Lin, Z. Q., Liu, B., & Wei, Y. Q. (2012). Cell Proliferation, 45(3), 217-224. doi:10.1111/j.1365-2184.2012.00814.x.