Journal
BIOINFORMATICS
Volume 30, Issue 10, Pages 1473-1475Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btu048
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Funding
- National Research Foundation of Korea [2013000718, 2013065262]
- Plant Molecular Breeding Center of Next-Generation BioGreen 21 Program [PJ009081]
- Park Science Fellowship
- National Research Foundation of Korea [2013R1A1A2065262] Funding Source: Korea Institute of Science & Technology Information (KISTI), National Science & Technology Information Service (NTIS)
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The Type II clustered regularly interspaced short palindromic repeats (CRISPR)/Cas system is an adaptive immune response in prokaryotes, protecting host cells against invading phages or plasmids by cleaving these foreign DNA species in a targeted manner. CRISPR/Cas-derived RNA-guided engineered nucleases (RGENs) enable genome editing in cultured cells, animals and plants, but are limited by off-target mutations. Here, we present a novel algorithm termed Cas-OFFinder that searches for potential off-target sites in a given genome or user-defined sequences. Unlike other algorithms currently available for identification of RGEN off-target sites, Cas-OFFinder is not limited by the number of mismatches and allows variations in protospacer-adjacent motif sequences recognized by Cas9, the essential protein component in RGENs. Cas-OFFinder is available as a command-line program or accessible via our website.
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