首页|Computational Tools and Resources for CRISPR/Cas Genome Editing
Computational Tools and Resources for CRISPR/Cas Genome Editing
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The past decade has witnessed a rapid evolution in identifying more versatile clustered regularly interspaced short palindromic repeats(CRISPR)/CRISPR-associated protein(Cas)nucle-ases and their functional variants,as well as in developing precise CRISPR/Cas-derived genome editors.The programmable and robust features of the genome editors provide an effective RNA-guided platform for fundamental life science research and subsequent applications in diverse scenar-ios,including biomedical innovation and targeted crop improvement.One of the most essential principles is to guide alterations in genomic sequences or genes in the intended manner without undesired off-target impacts,which strongly depends on the efficiency and specificity of single guide RNA(sgRNA)-directed recognition of targeted DNA sequences.Recent advances in empirical scor-ing algorithms and machine learning models have facilitated sgRNA design and off-target predic-tion.In this review,we first briefly introduce the different features of CRISPR/Cas tools that should be taken into consideration to achieve specific purposes.Secondly,we focus on the computer-assisted tools and resources that are widely used in designing sgRNAs and analyzing CRISPR/Cas-induced on-and off-target mutations.Thirdly,we provide insights into the limita-tions of available computational tools that would help researchers of this field for further optimiza-tion.Lastly,we suggest a simple but effective workflow for choosing and applying web-based resources and tools for CRISPR/Cas genome editing.
Genome editingEfficiency and specificityCRISPR/Cas9sgRNAComputational toolAlgorithm
Oil Crops Research Institute,Chinese Academy of Agricultural Sciences,Key Laboratory for Biology and Genetic Improvement of Oil Crops,Ministry of Agriculture and Rural Affairs,Wuhan 430062,China
Graduate School of Chinese Academy of Agricultural Sciences,Beijing 100081,China
Department of Biology,East Carolina University,Greenville,NC 27858,USA
Cotton IncorporatedNational Science Foundation,the United StatesNational Natural Science Foundation of ChinaFundamental Research Funds for the Central Nonprofit Scientific InstitutionNatural Science Foundation of Hubei Province,China
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