WU-CRISPR: characteristics of functional guide RNAs for the CRISPR/Cas9 system

By Nathan Wong, Weijun Liu, Xiaowei Wang. Genome Biology, 2015

328 citations recorded by the source corpus.

The CRISPR/Cas9 system has been rapidly adopted for genome editing. However, one major issue with this system is the lack of robust bioinformatics tools for design of single guide RNA (sgRNA), which determines the efficacy and specificity of genome editing. To address this pressing need, we analyze CRISPR RNA-seq data and identify many novel features that are characteristic of highly potent sgRNAs. These features are used to develop a bioinformatics tool for genome-wide design of sgRNAs with improved efficiency. These sgRNAs as well as the design tool are freely accessible via a web server, WU-CRISPR (http://crispr.wustl.edu).

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/7b9fee74d646675a99e7cfe9568df2a425d2b652

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Citations in the corpus

• Evaluation of off-target and on-target scoring algorithms and integration into the guide RNA selection tool CRISPOR (2016, methodology): “Two prediction schemes can reach a relatively high precision: the Wong score [45] for cell cultures (U6 promoter) and the -GG rule for T7 in vitro transcription.”
• DeepCRISPR: optimized CRISPR guide RNA design by deep learning (2018, methodology): “…test data for the four cell lines, respectively, and compared with eight state-of-the-art tools that were trained with human cell line data, including sgRNA Designer [2], SSC [5], CHOP-CHOP [10], CRISPR MultiTargeter [38], E-CRISP [9], sgRNA Scorer [12], Cas-Designer [39], and WU-CRISPR [40] (Fig.”