Parallel genome-scale loss of function screens in 216 cancer cell lines for the identification of context-specific genetic dependencies.

ABSTRACT: Using a genome-scale, lentivirally delivered shRNA library, we performed massively parallel pooled shRNA screens in 216 cancer cell lines to identify genes that are required for cell proliferation and/or viability. Cell line dependencies on 11,000 genes were interrogated by 5 shRNAs per gene. The proliferation effect of each shRNA in each cell line was assessed by transducing a population of 11M cells with one shRNA-virus per cell and determining the relative enrichment or depletion of each of the 54,000 shRNAs after 16 population doublings using Next Generation Sequencing. All the cell lines were screened using standardized conditions to best assess differential genetic dependencies across cell lines. When combined with genomic characterization of these cell lines, this dataset facilitate

SUBMITTER: Cowley GS 

PROVIDER: S-EPMC4432652 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature