Dataset Information
PgRNAFinder: a web-based tool to design distance independent paired-gRNA.
Ontology highlight
ABSTRACT: Summary
The CRISPR/Cas System has been shown to be an efficient and accurate genome-editing technique. There exist a number of tools to design the guide RNA sequences and predict potential off-target sites. However, most of the existing computational tools on gRNA design are restricted to small deletions. To address this issue, we present pgRNAFinder, with an easy-to-use web interface, which enables researchers to design single or distance-free paired-gRNA sequences. The web interface of pgRNAFinder contains both gRNA search and scoring system. After users input query sequences, it searches gRNA by 3' protospacer-adjacent motif (PAM), and possible off-targets, and scores the conservation of the deleted sequences rapidly. Filters can be applied to identify high-quality CRISPR sites. PgRNAFinder offers gRNA design functionality for 8 vertebrate genomes. Furthermore, to keep pgRNAFinder open, extensible to any organism, we provide the source package for local use.Availability and implementation
The pgRNAFinder is freely available at http://songyanglab.sysu.edu.cn/wangwebs/pgRNAFinder/, and the source code and user manual can be obtained from https://github.com/xiexiaowei/pgRNAFinder.Contact
songyang@bcm.edu or daizhim@mail.sysu.edu.cn.Supplementary information
Supplementary data are available at Bioinformatics online.
SUBMITTER: Xiong Y
PROVIDER: S-EPMC5870604 | biostudies-literature | 2017 Nov
REPOSITORIES: biostudies-literature
Publications
pgRNAFinder: a web-based tool to design distance independent paired-gRNA.
Bioinformatics (Oxford, England) 20171101 22
<h4>Summary</h4>The CRISPR/Cas System has been shown to be an efficient and accurate genome-editing technique. There exist a number of tools to design the guide RNA sequences and predict potential off-target sites. However, most of the existing computational tools on gRNA design are restricted to small deletions. To address this issue, we present pgRNAFinder, with an easy-to-use web interface, which enables researchers to design single or distance-free paired-gRNA sequences. The web interface of ...[more]
