Cancer proliferation gene discovery through functional Genomics

Schlabach, M. R., Luo, J., Solimini, N. L., Hu, G., Xu, Q. K., Li, M. Z., Zhao, Z. M., Smogorzewska, A., Sowa, M. E., Ang, X. L. L., Westbrook, T. F., Liang, A. C., Chang, K., Hackett, J. A., Harper, J. W., Hannon, G. J., Elledge, S. J. (February 2008) Cancer proliferation gene discovery through functional Genomics. Science, 319 (5863). pp. 620-624. ISSN 0036-8075

URL: http://www.ncbi.nlm.nih.gov/pubmed/18239126
DOI: 10.1126/science.1149200

Abstract

Retroviral short hairpin RNA (shRNA) - mediated genetic screens in mammalian cells are powerful tools for discovering loss- of- function phenotypes. We describe a highly parallel multiplex methodology for screening large pools of shRNAs using half- hairpin barcodes for microarray deconvolution. We carried out dropout screens for shRNAs that affect cell proliferation and viability in cancer cells and normal cells. We identified many shRNAs to be antiproliferative that target core cellular processes, such as the cell cycle and protein translation, in all cells examined. Moreover, we identified genes that are selectively required for proliferation and survival in different cell lines. Our platform enables rapid and cost- effective genome-wide screens to identify cancer proliferation and survival genes for target discovery. Such efforts are complementary to the Cancer Genome Atlas and provide an alternative functional view of cancer cells.

Item Type: Paper
Uncontrolled Keywords: COLORECTAL CANCERS HUMAN BREAST P53 PATHWAY SCREEN PHOSPHATASE CELLS MDM2
Subjects: diseases & disorders > cancer
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification
diseases & disorders
bioinformatics > genomics and proteomics > genetics & nucleic acid processing
bioinformatics > genomics and proteomics
bioinformatics > genomics and proteomics > genetics & nucleic acid processing > DNA, RNA structure, function, modification > shRNA
CSHL Authors:
Communities: CSHL labs > Hannon lab
Depositing User: Matt Covey
Date: February 2008
Date Deposited: 28 Feb 2013 16:18
Last Modified: 28 Feb 2013 16:18
PMCID: PMC2981870
Related URLs:
URI: http://repository.cshl.edu/id/eprint/27497

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