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CIRCLE-Seq for Interrogation of Off-Target Gene Editing
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OffScan: a universal and fast CRISPR off-target sites detection tool
Yingbo Cui1, Xiangke Liao1, Shaoliang Peng2,3
1School of Computer, National University of Defense Technology, Changsha,, 410073, China.
BMC Genomics
|March 7, 2020
Summary
OffScan is a new tool for detecting CRISPR off-target effects. It efficiently identifies unintended mutations caused by single guide RNA (sgRNA) in genome editing.
Area of Science:
- Molecular Biology
- Genomics
- Bioinformatics
Background:
- Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) and CRISPR-associated proteins (Cas) is a key genome editing technology.
- RNA guides Cas nuclease for DNA modification, crucial for gene function analysis.
Purpose of the Study:
- To present OffScan, a universal and fast tool for detecting CRISPR off-target effects.
- To address limitations in CRISPR/Cas technology caused by off-target mutations.
Main Methods:
- Development of OffScan, a CRISPR off-target detection tool.
- Utilizing the FM-index for improved query speed and reduced memory consumption.
Main Results:
- OffScan efficiently detects off-target effects of single guide RNA (sgRNA).
- The tool identifies undesired mutations in the genome, a limitation of CRISPR/Cas.
Conclusions:
- OffScan is not limited by the number of mismatches.
- The tool supports custom protospacer-adjacent motif (PAM) detection.
- OffScan offers efficient query speed and reduced memory usage.
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