CRISPR library designer (CLD): software for multispecies design of single guide RNA libraries. Issue 1 (December 2016)

• Record Type: Journal Article
• Authors: Heigwer, Florian; Zhan, Tianzuo; Breinig, Marco; Winter, Jan; Brügemann, Dirk; Leible, Svenja; Boutros, Michael
• Is Part Of: Genome biology. Volume 17:Issue 1(2016)
• Page Start: 1
• Page End: 10
• Publication Date: 2016-12
• Subjects: Bioinformatics -- CRISPR/Cas9 -- sgRNA design -- Pooled screens -- Functional genomics; Genomes -- Periodicals; Biology -- Periodicals; Molecular biology -- Periodicals; 572.8633
• DOI: 10.1186/s13059-016-0915-2
• Languages: English
• ISSNs: 1474-760X

Abstract

Abstract Background Genetic screens using CRISPR/Cas9 are a powerful method for the functional analysis of genomes. Results Here we describe CRISPR library designer (CLD), an integrated bioinformatics application for the design of custom single guide RNA (sgRNA) libraries for all organisms with annotated genomes. CLD is suitable for the design of libraries using modified CRISPR enzymes and targeting non-coding regions. To demonstrate its utility, we perform a pooled screen for modulators of the TNF-related apoptosis inducing ligand (TRAIL) pathway using a custom library of 12, 471 sgRNAs. Conclusion CLD predicts a high fraction of functional sgRNAs and is publicly available athttps://github.com/boutroslab/cld .