Cpfl-Database：基于网络的基因组范围的向导 RNA 文库设计，用于使用 CRISPR-Cpf1 进行基因敲除筛选。
Cpf1-Database: web-based genome-wide guide RNA library design for gene knockout screens using CRISPR-Cpf1.
机构信息
Department of Chemistry, Hanyang University, Seoul 04763, South Korea.
Research Institute for Convergence of Basic Sciences, Hanyang University, Seoul 04763, South Korea.
出版信息
Bioinformatics. 2018 Mar 15;34(6):1077-1079. doi: 10.1093/bioinformatics/btx695.
SUMMARY
Following the type II CRISPR-Cas9 system, type V CRISPR-Cpf1 endonucleases have been found to be applicable for genome editing in various organisms in vivo. However, there are as yet no web-based tools capable of optimally selecting guide RNAs (gRNAs) among all possible genome-wide target sites. Here, we present Cpf1-Database, a genome-wide gRNA library design tool for LbCpf1 and AsCpf1, which have DNA recognition sequences of 5'-TTTN-3' at the 5' ends of target sites. Cpf1-Database provides a sophisticated but simple way to design gRNAs for AsCpf1 nucleases on the genome scale. One can easily access the data using a straightforward web interface, and using the powerful collections feature one can easily design gRNAs for thousands of genes in short time.
AVAILABILITY AND IMPLEMENTATION
Free access at http://www.rgenome.net/cpf1-database/.
CONTACT
摘要
继 II 型 CRISPR-Cas9 系统之后，现已发现 V 型 CRISPR-Cpf1 内切酶可适用于体内多种生物的基因组编辑。然而，目前还没有基于网络的工具能够在所有可能的全基因组靶位点中对向导 RNA（gRNA）进行最佳选择。在这里，我们介绍了 Cpf1-Database，这是一个针对 LbCpf1 和 AsCpf1 的全基因组 gRNA 文库设计工具，它们在靶位点的 5' 端具有 5'-TTTN-3' 的 DNA 识别序列。Cpf1-Database 提供了一种复杂但简单的方法，可在基因组范围内为 AsCpf1 核酸酶设计 gRNA。用户可以使用简单的网络界面轻松访问数据，并且使用强大的集合功能，可以在短时间内轻松地为数千个基因设计 gRNA。
可用性和实施情况
可在 http://www.rgenome.net/cpf1-database/ 免费获取。
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