• Bmc Genomics · Mar 2020

    OffScan: a universal and fast CRISPR off-target sites detection tool.

    • Yingbo Cui, Xiangke Liao, Shaoliang Peng, Tao Tang, Chun Huang, and Canqun Yang.
    • School of Computer, National University of Defense Technology, Changsha,, 410073, China.
    • Bmc Genomics. 2020 Mar 5; 21 (Suppl 1): 872.

    BackgroundThe Type II clustered regularly interspaced short palindromic repeats (CRISPR) and CRISPR-associated proteins (Cas) is a powerful genome editing technology, which is more and more popular in gene function analysis. In CRISPR/Cas, RNA guides Cas nuclease to the target site to perform DNA modification.ResultsThe performance of CRISPR/Cas depends on well-designed single guide RNA (sgRNA). However, the off-target effect of sgRNA leads to undesired mutations in genome and limits the use of CRISPR/Cas. Here, we present OffScan, a universal and fast CRISPR off-target detection tool.ConclusionsOffScan is not limited by the number of mismatches and allows custom protospacer-adjacent motif (PAM), which is the target site by Cas protein. Besides, OffScan adopts the FM-index, which efficiently improves query speed and reduce memory consumption.

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