Unsupervised correction of gene-independent cell responses to CRISPR-Cas9 targeting.

ABSTRACT:

Background

Genome editing by CRISPR-Cas9 technology allows large-scale screening of gene essentiality in cancer. A confounding factor when interpreting CRISPR-Cas9 screens is the high false-positive rate in detecting essential genes within copy number amplified regions of the genome. We have developed the computational tool CRISPRcleanR which is capable of identifying and correcting gene-independent responses to CRISPR-Cas9 targeting. CRISPRcleanR uses an unsupervised approach based on the segmentation of single-guide RNA fold change values across the genome, without making any assumption about the copy number status of the targeted genes.

Results

Applying our method to existing and newly generated genome-wide essentiality profiles from 15 cancer cell lines, we demonstrate t

SUBMITTER: Iorio F 

PROVIDER: S-EPMC6088408 | biostudies-literature | 2018 Aug

REPOSITORIES: biostudies-literature