CRISPR文库设计器（CLD）：用于单导向RNA文库多物种设计的软件。
CRISPR library designer (CLD): software for multispecies design of single guide RNA libraries.
作者信息
Heigwer Florian, Zhan Tianzuo, Breinig Marco, Winter Jan, Brügemann Dirk, Leible Svenja, Boutros Michael
机构信息
Division Signaling and Functional Genomics, German Cancer Research Center (DKFZ) and Heidelberg University, Im Neuenheimer Feld 580, Heidelberg, 69120, Germany.
Department of Medicine II, University Hospital Mannheim, Medical Faculty Mannheim, Heidelberg University, Mannheim, Germany.
出版信息
Genome Biol. 2016 Mar 24;17:55. doi: 10.1186/s13059-016-0915-2.
BACKGROUND
Genetic screens using CRISPR/Cas9 are a powerful method for the functional analysis of genomes.
RESULTS
Here we describe CRISPR library designer (CLD), an integrated bioinformatics application for the design of custom single guide RNA (sgRNA) libraries for all organisms with annotated genomes. CLD is suitable for the design of libraries using modified CRISPR enzymes and targeting non-coding regions. To demonstrate its utility, we perform a pooled screen for modulators of the TNF-related apoptosis inducing ligand (TRAIL) pathway using a custom library of 12,471 sgRNAs.
CONCLUSION
CLD predicts a high fraction of functional sgRNAs and is publicly available at https://github.com/boutroslab/cld.
背景
使用CRISPR/Cas9进行基因筛选是基因组功能分析的有力方法。
结果
在此，我们描述了CRISPR文库设计工具（CLD），这是一种集成的生物信息学应用程序，用于为所有具有注释基因组的生物体设计定制的单向导RNA（sgRNA）文库。CLD适用于使用修饰的CRISPR酶和靶向非编码区的文库设计。为证明其效用，我们使用一个包含12471个sgRNA的定制文库对肿瘤坏死因子相关凋亡诱导配体（TRAIL）途径的调节剂进行了混合筛选。
结论
CLD可预测大部分功能性sgRNA，可在https://github.com/boutroslab/cld上公开获取。
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