CRISPR-DO for genome-wide CRISPR design and optimization

In this study, we propose a web application for the Design and Optimization (CRISPR-DO) of guide sequences that target both coding and non-coding regions in spCas9 CRISPR system across human, mouse, zebrafish, fly and worm genomes. CRISPR-DO uses a computational sequence model to predict sgRNA efficiency, and employs a specificity scoring function to evaluate the potential of off-target effect. It also provides information on functional conservation of target sequences, as well as the overlaps with exons, putative regulatory sequences and single-nucleotide polymorphisms (SNPs). The web application has a user-friendly genome–browser interface to facilitate the selection of the best target DNA sequences for experimental design.
Availability and Implementation: CRISPR-DO is available at http://cistrome.org/crispr/
Contact: [e-mail] or [e-mail] or [e-mail]
Supplementary information: Supplementary data are available at Bioinformatics online.

Source: Bioinformatics - October 24, 2016 Category: Bioinformatics Authors: Ma, J., Köster, J., Qin, Q., Hu, S., Li, W., Chen, C., Cao, Q., Wang, J., Mei, S., Liu, Q., Xu, H., Liu, X. S. Tags: GENOME ANALYSIS Source Type: research