Singular value decomposition-based regression identifies activation of endogenous signaling pathways in vivo
作者： Zhandong Liu , Min Wang , James V Alvarez , Megan E Bonney , Chien-chung Chen
DOI: 10.1186/GB-2008-9-12-R180
关键词:
摘要: The ability to detect activation of signaling pathways based solely on gene expression data represents an important goal in biological research. We tested the sensitivity singular value decomposition-based regression by focusing functional interactions between Ras and transforming growth factor beta pathways. Our findings demonstrate that this approach is sufficiently sensitive secondary endogenous as it occurs through crosstalk following ectopic a primary pathway.
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Mark G. Alexandrow, Harold L. Moses, Transforming Growth Factor β and Cell Cycle Regulation Cancer Research. ,vol. 55, pp. 1452- 1457 ,(1995)
Min Wang, Stephen R Master, Lewis A Chodosh, Computational expression deconvolution in a complex mammalian organ BMC Bioinformatics. ,vol. 7, pp. 328- 328 ,(2006) , 10.1186/1471-2105-7-328
J. P. Daily, D. Scanfeld, N. Pochet, K. Le Roch, D. Plouffe, M. Kamal, O. Sarr, S. Mboup, O. Ndir, D. Wypij, K. Levasseur, E. Thomas, P. Tamayo, C. Dong, Y. Zhou, E. S. Lander, D. Ndiaye, D. Wirth, E. A. Winzeler, J. P. Mesirov, A. Regev, Distinct physiological states of Plasmodium falciparum in malaria-infected patients Nature. ,vol. 450, pp. 1091- 1095 ,(2007) , 10.1038/NATURE06311
Sandra T. Marquis, Jayant V. Rajan, Anthony Wynshaw-Boris, Junzhe Xu, Gui-Ying Yin, Kenneth J. Abel, Barbara L. Weber, Lewis A. Chodosh, The developmental pattern of Brca1 expression implies a role in differentiation of the breast and other tissues Nature Genetics. ,vol. 11, pp. 17- 26 ,(1995) , 10.1038/NG0995-17
Maria Davies, Max Robinson, Emily Smith, Suzy Huntley, Stephen Prime, Ian Paterson, Induction of an epithelial to mesenchymal transition in human immortal and malignant keratinocytes by TGF‐β1 involves MAPK, Smad and AP‐1 signalling pathways Journal of Cellular Biochemistry. ,vol. 95, pp. 918- 931 ,(2005) , 10.1002/JCB.20458
Christopher J. Sarkisian, Blaine A. Keister, Douglas B. Stairs, Robert B. Boxer, Susan E. Moody, Lewis A. Chodosh, Dose-dependent oncogene-induced senescence in vivo and its evasion during mammary tumorigenesis Nature Cell Biology. ,vol. 9, pp. 493- 505 ,(2007) , 10.1038/NCB1567
M. Kretzschmar, J. Doody, I. Timokhina, J. Massague, A mechanism of repression of TGFbeta/ Smad signaling by oncogenic Ras. Genes & Development. ,vol. 13, pp. 804- 816 ,(1999) , 10.1101/GAD.13.7.804
Nour Sneige, Utility of cytologic specimens in the evaluation of prognostic and predictive factors of breast cancer: current issues and future directions. Diagnostic Cytopathology. ,vol. 30, pp. 158- 165 ,(2004) , 10.1002/DC.20005
L. D. Wood, D. W. Parsons, S. Jones, J. Lin, T. Sjoblom, R. J. Leary, D. Shen, S. M. Boca, T. Barber, J. Ptak, N. Silliman, S. Szabo, Z. Dezso, V. Ustyanksky, T. Nikolskaya, Y. Nikolsky, R. Karchin, P. A. Wilson, J. S. Kaminker, Z. Zhang, R. Croshaw, J. Willis, D. Dawson, M. Shipitsin, J. K. V. Willson, S. Sukumar, K. Polyak, B. H. Park, C. L. Pethiyagoda, P. V. K. Pant, D. G. Ballinger, A. B. Sparks, J. Hartigan, D. R. Smith, E. Suh, N. Papadopoulos, P. Buckhaults, S. D. Markowitz, G. Parmigiani, K. W. Kinzler, V. E. Velculescu, B. Vogelstein, Genomic landscapes of human breast and colorectal cancers Science. ,vol. 318, pp. 1108- 1113 ,(2008) , 10.1126/SCIENCE.1145720
Eun-Sook Kim, Mi-Sung Kim, Aree Moon, Transforming growth factor (TGF)-β in conjunction with H-ras activation promotes malignant progression of MCF10A breast epithelial cells Cytokine. ,vol. 29, pp. 84- 91 ,(2005) , 10.1016/J.CYTO.2004.10.001