Abstract
Variable screen quality, off-target effects, and unclear false discovery rates often hamper large-scale functional genomic screens in mammalian cells. Hart et al (2014) introduce gold standard reference sets of essential and non-essential genes, aiming at standardizing the analysis of genome-wide screens. This work provides a framework to compare both the quality and analysis methods of functional genetic screens.
Highlights
Variable screen quality, off-target effects, and unclear false discovery rates often hamper large-scale functional genomic screens in mammalian cells. Hart et al (2014) introduce gold standard reference sets of essential and non-essential genes, aiming at standardizing the analysis of genome-wide screens
I n the last decade, several screening technologies have been developed that allow for genome-scale perturbation of gene expression in mammalian cells
The authors assembled standard sets of essential and non-essential genes based on the analysis of a previously published collection of genome-scale shRNA screens for 72 human cancer cell lines (Marcotte et al, 2012)
Summary
Off-target effects, and unclear false discovery rates often hamper large-scale functional genomic screens in mammalian cells. Hart et al (2014) introduce gold standard reference sets of essential and non-essential genes, aiming at standardizing the analysis of genome-wide screens. I n the last decade, several screening technologies have been developed that allow for genome-scale perturbation of gene expression in mammalian cells. Large-scale shRNA screens have been applied broadly to identify genes that are lethal under specific circumstances, for example in combination with a drug treatment or in the context of disease-specific genetic alterations.
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