CasOT: a genome-wide Cas9/gRNA off-target searching tool

The CRISPR/Cas or Cas9/guide RNA system is a newly developed, easily engineered and highly effective tool for gene targeting; it has considerable off-target effects in cultured human cells and in several organisms. However, the Cas9/guide RNA target site is too short for existing alignment tools to...

Full description

Saved in:
Bibliographic Details
Published in:Bioinformatics 2014-04, Vol.30 (8), p.1180-1182
Main Authors: Xiao, An, Cheng, Zhenchao, Kong, Lei, Zhu, Zuoyan, Lin, Shuo, Gao, Ge, Zhang, Bo
Format: Article
Language:English
Subjects:
Bioinformatics
Computational Biology - methods
CRISPR-Cas Systems
Gene Targeting
Genes
Genomes
Human
Humans
Organisms
Ribonucleic acids
RNA, Guide, CRISPR-Cas Systems - genetics
Seeds
Software
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:The CRISPR/Cas or Cas9/guide RNA system is a newly developed, easily engineered and highly effective tool for gene targeting; it has considerable off-target effects in cultured human cells and in several organisms. However, the Cas9/guide RNA target site is too short for existing alignment tools to exhaustively and effectively identify potential off-target sites. CasOT is a local tool designed to find potential off-target sites in any given genome or user-provided sequence, with user-specified types of protospacer adjacent motif, and number of mismatches allowed in the seed and non-seed regions. http://eendb.zfgenetics.org/casot/ CONTACT: zfgenetics@gmail.com or bzhang@pku.edu.cn Supplementary Information: Supplementary data are available at Bioinformatics online.
ISSN:1367-4803
1367-4811
1460-2059
DOI:10.1093/bioinformatics/btt764