RT Journal Article
SR Electronic
T1 Genome-wide CRISPR guide RNA design and specificity analysis with GuideScan2
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2022.05.02.490368
DO 10.1101/2022.05.02.490368
A1 Schmidt, Henri
A1 Zhang, Minsi
A1 Mourelatos, Haralambos
A1 Sánchez-Rivera, Francisco J.
A1 Lowe, Scott W.
A1 Ventura, Andrea
A1 Leslie, Christina S.
A1 Pritykin, Yuri
YR 2022
UL http://biorxiv.org/content/early/2022/05/03/2022.05.02.490368.abstract
AB We present GuideScan2 for memory-efficient, parallelizable construction of high-specificity CRISPR guide RNA (gRNA) databases and user-friendly gRNA/library design in custom genomes. GuideScan2 analysis identified widespread confounding effects of low-specificity gRNAs in published CRISPR knockout, interference and activation screens and enabled construction of a ready-to-use gRNA library that reduced off-target effects in a novel gene essentiality screen. GuideScan2 also enabled the design and experimental validation of allele-specific gRNAs in a hybrid mouse genome.Competing Interest StatementS.W.L. is an advisor for and has equity in the following biotechnology companies: ORIC Pharmaceuticals, Faeth Therapeutics, Blueprint Medicines, Geras Bio, Mirimus Inc. and PMV Pharmaceuticals. S.W.L. acknowledges receiving funding and research support from Agilent Technologies for the purposes of massively parallel oligo synthesis.