CRISPR-ERA: a comprehensive design tool for CRISPR-mediated gene editing, repression and activation.
CRISPR-ERA: a comprehensive design tool for CRISPR-mediated gene editing, repression and activation.
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CRISPR-ERA：用于 CRISPR 介导的基因编辑、抑制和激活的综合设计工具
DOI：
10.1093/bioinformatics/btv423
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发表时间：
2015-11-15
期刊：
影响因子：
--
通讯作者：
Qi LS
中科院分区：
文献类型：
--
作者：
Liu H;Wei Z;Dominguez A;Li Y;Wang X;Qi LS
总结：CRISPR/Cas9系统是最近开发的一种强大而灵活的靶向基因组工程技术，包括基因组编辑（改变遗传序列）和基因调控（不改变遗传序列）。这些应用需要设计高效且特异的单向导RNA（sgRNA）。然而，这仍然具有挑战性，因为它需要考虑许多标准。已经开发了几种用于基因编辑的sgRNA设计工具，但目前还没有用于设计用于基因调控的sgRNA的工具。随着CRISPR/Cas9用于基因编辑和调控的实验数据的积累，我们基于从这些已发表的报告中总结的一组sgRNA设计规则实现了一个全面的计算工具。我们报告了一个全基因组sgRNA设计工具，并提供了一个在线网站，预测sgRNA是有效的和具体的。我们将该工具命名为CRISPR-ERA，用于定期间隔的短回文重复介导的编辑，抑制和激活（ERA）。可用性和实施情况：http://CRISPR-ERA.stanford.edu。联系方式：stanley.qi@ stanford.edu或xwwang@tsinghua.edu.cn补充信息：补充数据可在生物信息学在线获得。
Summary: The CRISPR/Cas9 system was recently developed as a powerful and flexible technology for targeted genome engineering, including genome editing (altering the genetic sequence) and gene regulation (without altering the genetic sequence). These applications require the design of single guide RNAs (sgRNAs) that are efficient and specific. However, this remains challenging, as it requires the consideration of many criteria. Several sgRNA design tools have been developed for gene editing, but currently there is no tool for the design of sgRNAs for gene regulation. With accumulating experimental data on the use of CRISPR/Cas9 for gene editing and regulation, we implement a comprehensive computational tool based on a set of sgRNA design rules summarized from these published reports. We report a genome-wide sgRNA design tool and provide an online website for predicting sgRNAs that are efficient and specific. We name the tool CRISPR-ERA, for clustered regularly interspaced short palindromic repeat-mediated editing, repression, and activation (ERA). Availability and implementation: http://CRISPR-ERA.stanford.edu. Contact: stanley.qi@stanford.edu or xwwang@tsinghua.edu.cn Supplementary information: Supplementary data are available at Bioinformatics online.