CRISPR/Cas9 single guide RNA design software tools | Genome engineering data analysis
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.
Scans a DNA sequence for identifying potential zinc finger protein (ZFP) and zinc finger nuclease (ZFN) binding sites. ZiFiT is a web server that enables customizable searches for potential ZFP and ZFN-binding sites that can be targeted using either the modular assembly or OPEN engineering methods. The software also provides several tools to assist the evaluation of ZFP targets, such validated scoring schemes for ranking potential target sites, or a tool for querying NCBI BLAST servers for potential off-target sites.
A web tool for CRISPR- and TALEN-based genome editing. The overarching principle of CHOPCHOP is to provide an intuitive and powerful tool that can serve first time as well as experienced users. The basic mode offers optimized defaults for the basic user, while more advanced users can select from a wide range of options curated from the literature by their relevance and utility. All options are presented in a tabulated and organized manner to help users quickly visualize and evaluate options when designing CRISPR experiments.
A tool to determine suitable CRISPR/Cas9 target sites in a given query sequence(s) and predict its potential off-target sites. CCTop identifies and ranks all candidate sgRNA target sites according to their off-target quality and displays full documentation. CCTop was experimentally validated for gene inactivation, non-homologous end-joining as well as homology directed repair. CCTop is an experimentally validated system for the rapid selection of high quality target sites for gene inactivation, non-homologous end-joining as well as homology directed repair.
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