Guidescan2

GuideScan2 is a tool for genome-wide CRISPR guide RNA (gRNA) design
and analysis in custom genomes. A complete description and usage
information can be found in our manual.pdf. If
you found this tool useful for your research, please cite us at:

@article {Schmidt2022.05.02.490368,
	author = {Schmidt, Henri and Zhang, Minsi and Mourelatos, Haralambos and S{\'a}nchez-Rivera, Francisco J. and Lowe, Scott W. and Ventura, Andrea and Leslie, Christina S. and Pritykin, Yuri},
	title = {Genome-wide CRISPR guide RNA design and specificity analysis with GuideScan2},
	elocation-id = {2022.05.02.490368},
	year = {2022},
	doi = {10.1101/2022.05.02.490368},
	publisher = {Cold Spring Harbor Laboratory},
	abstract = {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.},
	URL = {https://www.biorxiv.org/content/early/2022/05/03/2022.05.02.490368},
	eprint = {https://www.biorxiv.org/content/early/2022/05/03/2022.05.02.490368.full.pdf},
	journal = {bioRxiv}
}