Saraswat Pooja, Ranjan Rajiv
Department of Botany, Faculty of Science, Dayalbagh Educational Institute, Agra, Uttar Pradesh, India.
Front Plant Sci. 2025 Jul 21;16:1563711. doi: 10.3389/fpls.2025.1563711. eCollection 2025.
Recent breakthroughs in CRISPR/Cas genome editing have transformed molecular biology research and offer significant potential across biotechnology and medicine. This has created a broad spectrum of computational tools and databases that aim to optimize each phase of the genome-edited workflow, from guide RNA design and off-target prediction through screening analysis and biological validation. Here, we survey major CRISPR tools and analyse their features in the context of precision genome editing. CRISPOR and CHOPCHOP versatile platform that provides robust guide RNA design for several species, integrated off-target scoring, and intuitive genomic locus visualization. This review gives an overview of these new resources that have been developed, grouped based on their functionalities like design of guide RNA, off-target predictions, genome-wide screens, and visualizations of the data. Furthermore, we discuss new trends in database development like their integration with genome browsers and implementation of machine learning. This review thus gives a useful overview of the dynamic field of CRISPR/Cas genome editing tools. It also serves as a helpful guide for researchers looking to utilize these tools in their research.
CRISPR/Cas基因组编辑技术的最新突破改变了分子生物学研究，并在生物技术和医学领域展现出巨大潜力。这催生了一系列计算工具和数据库，旨在优化基因组编辑工作流程的各个阶段，从引导RNA设计、脱靶预测到筛选分析和生物学验证。在此，我们对主要的CRISPR工具进行了综述，并在精准基因组编辑的背景下分析了它们的特点。CRISPOR和CHOPCHOP是多功能平台，可为多个物种提供强大的引导RNA设计、整合脱靶评分以及直观的基因组位点可视化功能。本综述概述了这些已开发的新资源，并根据其功能进行分类，如引导RNA设计、脱靶预测、全基因组筛选和数据可视化。此外，我们还讨论了数据库开发的新趋势，如与基因组浏览器的整合以及机器学习的应用。因此，本综述对CRISPR/Cas基因组编辑工具这一动态领域进行了有益的概述。它也为希望在研究中使用这些工具的研究人员提供了有用的指导。
