Genetic interaction mapping in mammalian cells using CRISPR interference.

Dan DuAssen RoguevDavid E GordonMeng ChenSi-Han ChenMichael ShalesJohn Paul ShenTrey IdekerPrashant MaliLei S QiNevan J Krogan

Published in: Nature methods (2017)

We describe a combinatorial CRISPR interference (CRISPRi) screening platform for mapping genetic interactions in mammalian cells. We targeted 107 chromatin-regulation factors in human cells with pools of either single or double single guide RNAs (sgRNAs) to downregulate individual genes or gene pairs, respectively. Relative enrichment analysis of individual sgRNAs or sgRNA pairs allowed for quantitative characterization of genetic interactions, and comparison with protein-protein-interaction data revealed a functional map of chromatin regulation.

Keyphrases

genome wide
dna methylation
copy number
protein protein
high resolution
high density
small molecule
high throughput
transcription factor
dna damage
cancer therapy
big data
oxidative stress