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GLiDe:一个基于网络的基因组规模的CRISPRi sgRNA设计工具,用于 prokaryotes

Tongjun Xiang^1,2, Huibao Feng^3,4, Xin-Hui Xing^1,5,6

¹MOE Key Laboratory for Industrial Biocatalysis, Institute of Biochemical Engineering, Department of Chemical Engineering, Tsinghua University, Beijing, 100084, China.

BMC bioinformatics

|January 3, 2025

概括

指南图书馆设计器 (GLiDe) 是一种用于设计 prokaryotes 中的 CRISPRi sgRNA 图书馆的新工具. 它使用质量控制框架和大型物种数据库来最小化非目标效应,以便进行准确的功能基因组研究.

科学领域:

* 功能性基因组学
* Prokaryotic 的研究研究
* 克里斯普尔干扰 (克里斯普尔i)

背景情况:

*CRISPRi查对于功能性基因组研究至关重要.
*来自sgRNA不匹配的非目标效应是CRISPRi的一个主要挑战.
*精确的sgRNA设计对于可靠的CRISPRi查至关重要.

研究的目的:

* 介绍指南图书馆设计器 (GLiDe),这是一个基于Web的工具,用于设计基因组规模的sgRNA图书馆,用于原核体中的CRISPRi查.
* 在CRISPRi应用中解决和减轻非目标效应.
*为原生生物CRISPRi库设计提供一个用户友好的平台.

主要方法:

* 开发一个基于网络的工具 (GLiDe) 用于sgRNA库设计.
* 纳入基于实验数据的质量控制框架,以识别非目标命中.
*利用了1,397种 prokaryotic 的广泛的内置数据库.
*使用上传的数据为新生物设计sgRNA的选项.

主要成果:

* GLiDe使得基因组规模的CRISPRi sgRNA图书馆可以为原核生物设计.
* 该工具在识别非目标CRISPRi结合位点方面表现出更高的精度.
* 一个强大的质量控制框架有效地减轻了非目标效应.
*GLiDe支持常见和新发现的 prokaryotic 物种.

结论:

* 一个新的Web服务器,GLiDe,有助于构建 prokaryotic CRISPRi sgRNA 库.
* GLiDe通过综合质量控制框架减轻了非目标效应.
* 该工具为CRISPRi图书馆设计提供了一个端到端,用户友好的管道.

关键词:

在CRISPRi的sgRNA设计中.目标以外的具有约束力的识别.公共网络服务器

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