title: COLT-Cancer: functional genetic screening resource for essential genes in human cancer cell lines.
abstract: Genome-wide pooled shRNA screens enable global identification of the genes essential for cancer cell survival and proliferation and provide a 'functional genetic' map of human cancer to complement genomic studies. Using a lentiviral shRNA library targeting approximately 16,000 human genes and a newly developed scoring approach, we identified essential gene profiles in more than 70 breast, pancreatic and ovarian cancer cell lines. We developed a web-accessible database system for capturing information from each step in our standardized screening pipeline and a gene-centric search tool for exploring shRNA activities within a given cell line or across multiple cell lines. The database consists of a laboratory information and management system for tracking each step of a pooled shRNA screen as well as a web interface for querying and visualization of shRNA and gene-level performance across multiple cancer cell lines. COLT-Cancer Version 1.0 is currently accessible at http://colt.ccbr.utoronto.ca/cancer.
authors.affiliation: Banting and Best Department of Medical Research, Donnelly Centre, University of Toronto, 160 College St, Toronto, ON M5S 3E1, Canada M5G 0A3.
authors.forename: Judice L Y
authors.initials: JL
authors.lastname: Koh
authors.forename: Kevin R
authors.initials: KR
authors.lastname: Brown
authors.forename: Azin
authors.initials: A
authors.lastname: Sayad
authors.forename: Dahlia
authors.initials: D
authors.lastname: Kasimer
authors.forename: Troy
authors.initials: T
authors.lastname: Ketela
authors.forename: Jason
authors.initials: J
authors.lastname: Moffat
mesh_terms: D045744:Cell Line, Tumor; D030541:Databases, Genetic; D020043:Genes, Essential; D052138:Genes, Neoplasm; D006801:Humans; D009369:Neoplasms / Q000235:genetics*; D020411:Oligonucleotide Array Sequence Analysis; D034622:RNA Interference; D034741:RNA, Small Interfering
chemical_list: D034741:RNA, Small Interfering
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