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Genome Biol DOI:10.1186/s13059-019-1745-9

GEMINI: a variational Bayesian approach to identify genetic interactions from combinatorial CRISPR screens.

Publication TypeJournal Article
Year of Publication2019
AuthorsZamanighomi, M, Jain, SS, Ito, T, Pal, D, Daley, TP, Sellers, WR
JournalGenome Biol
Volume20
Issue1
Pages137
Date Published2019 07 12
ISSN1474-760X
KeywordsBayes Theorem, Clustered Regularly Interspaced Short Palindromic Repeats, Epistasis, Genetic, Genetic Techniques, Software
Abstract

Systems for CRISPR-based combinatorial perturbation of two or more genes are emerging as powerful tools for uncovering genetic interactions. However, systematic identification of these relationships is complicated by sample, reagent, and biological variability. We develop a variational Bayes approach (GEMINI) that jointly analyzes all samples and reagents to identify genetic interactions in pairwise knockout screens. The improved accuracy and scalability of GEMINI enables the systematic analysis of combinatorial CRISPR knockout screens, regardless of design and dimension. GEMINI is available as an open source R package on GitHub at https://github.com/sellerslab/gemini .

DOI10.1186/s13059-019-1745-9
Pubmed

http://www.ncbi.nlm.nih.gov/pubmed/31300006?dopt=Abstract

Alternate JournalGenome Biol.
PubMed ID31300006
PubMed Central IDPMC6624979