Department of Computer Science, University of Oxford, Parks Road, Oxford OX1 3QD, UK.
Nucleic Acids Res. 2021 Jan 8;49(D1):D855-D861. doi: 10.1093/nar/gkaa885.
With ongoing development of the CRISPR/Cas programmable nuclease system, applications in the area of in vivo therapeutic gene editing are increasingly within reach. However, non-negligible off-target effects remain a major concern for clinical applications. Even though a multitude of off-target cleavage datasets have been published, a comprehensive, transparent overview tool has not yet been established. Here, we present crisprSQL (http://www.crisprsql.com), an interactive and bioinformatically enhanced collection of CRISPR/Cas9 off-target cleavage studies aimed at enriching the fields of cleavage profiling, gene editing safety analysis and transcriptomics. The current version of crisprSQL contains cleavage data from 144 guide RNAs on 25,632 guide-target pairs from human and rodent cell lines, with interaction-specific references to epigenetic markers and gene names. The first curated database of this standard, it promises to enhance safety quantification research, inform experiment design and fuel development of computational off-target prediction algorithms.
随着 CRISPR/Cas 可编程核酸酶系统的不断发展，该系统在体内治疗性基因编辑领域的应用越来越接近现实。然而，不可忽视的脱靶效应仍然是临床应用的主要关注点。尽管已经发表了大量的脱靶切割数据集，但尚未建立一个全面、透明的概述工具。在这里，我们介绍了 crisprSQL（http://www.crisprsql.com），这是一个交互式的、经过生物信息学增强的 CRISPR/Cas9 脱靶切割研究集合，旨在丰富切割分析、基因编辑安全性分析和转录组学领域。crisprSQL 的当前版本包含了来自人类和啮齿动物细胞系的 25632 个向导靶对的 144 个向导 RNA 的切割数据，具有与表观遗传标记和基因名称的特异性交互引用。作为该标准的第一个经过精心整理的数据库，它有望增强安全性量化研究，为实验设计提供信息，并推动计算性脱靶预测算法的发展。
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