CRISPR-offinder：一个用于用户定义的原间隔基序的 CRISPR guide RNA 设计和脱靶搜索工具。
CRISPR-offinder: a CRISPR guide RNA design and off-target searching tool for user-defined protospacer adjacent motif.
机构信息
Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education & Key Laboratory of Swine Genetics and Breeding of Ministry of Agriculture, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, P. R. China.
The Cooperative Innovation Center for Sustainable Pig Production, Huazhong Agricultural University, Wuhan 430070, P. R. China.
出版信息
Int J Biol Sci. 2017 Nov 1;13(12):1470-1478. doi: 10.7150/ijbs.21312. eCollection 2017.
Designing efficient and specific CRISPR single-guide RNAs (sgRNAs) is vital for the successful application of CRISPR technology. Currently, a growing number of new RNA-guided endonucleases with a different protospacer adjacent motif (PAM) have been discovered, suggesting the necessity to develop a versatile tool for designing sgRNA to meet the requirement of different RNA-guided DNA endonucleases. Here, we report the development of a flexible sgRNA design program named "CRISPR-offinder". Support for user-defined PAM and sgRNA length was provided to increase the targeting range and specificity. Additionally, evaluation of on- and off-target scoring algorithms was integrated into the CRISPR-offinder. The CRISPR-offinder has provided the bench biologist a rapid and efficient tool for identification of high quality target sites, and it is freely available at https://sourceforge.net/projects/crispr-offinder-v1-2/ or http://www.biootools.com.
设计高效、特异的 CRISPR 单指导 RNA（sgRNA）对于成功应用 CRISPR 技术至关重要。目前，越来越多的具有不同原间隔序列邻近基序（PAM）的新型 RNA 指导内切酶被发现，这表明需要开发一种通用的 sgRNA 设计工具，以满足不同 RNA 指导的 DNA 内切酶的要求。在这里，我们报告了一种名为“CRISPR-offinder”的灵活 sgRNA 设计程序的开发。支持用户定义的 PAM 和 sgRNA 长度，以增加靶向范围和特异性。此外，还将靶标和脱靶评分算法的评估集成到了 CRISPR-offinder 中。CRISPR-offinder 为实验生物学家提供了一种快速、高效的鉴定高质量靶标位点的工具，可在 https://sourceforge.net/projects/crispr-offinder-v1-2/ 或 http://www.biootools.com 上免费获取。
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