{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,27]],"date-time":"2026-04-27T14:00:39Z","timestamp":1777298439525,"version":"3.51.4"},"reference-count":311,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2025,10,31]],"date-time":"2025-10-31T00:00:00Z","timestamp":1761868800000},"content-version":"vor","delay-in-days":61,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001503","name":"Indian Council of Agricultural Research","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001503","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,8,31]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)\u2013CRISPR associated protein (CRISPR-Cas) has emerged and evolved as a revolutionary genome editing technology, transforming research across diverse biological disciplines. Over the past decade, this technology has unveiled numerous opportunities for precise genome manipulation. However, the processes of discovering Cas proteins, repurposing them as editing tools, selecting appropriate candidate tool from the CRISPR-toolbox, designing experiments, and analyzing data are often complex and require careful consideration. To support researchers at every stage of CRISPR experimentation, a wide array of web resources has been developed. In this article, we provide a comprehensive overview of standalone and web-based tools that assist in the identification of CRISPR-Cas systems and the design of guide RNAs (gRNAs). We also highlight tools for evaluating gRNA efficiency, predicting CRISPR-Cas9 mutation profiles, as well as tools for base editing and prime editing, and the analysis and visualization of experimental results. Additionally, we introduce CRISPR\u2013Gateway for Accessing Tools and Resources (CRISPR-GATE), an all-inclusive web repository that consolidates publicly available tools for genome editing research. This repository offers a categorized and user-friendly interface, allowing researchers to quickly access relevant tools based on their specific needs. CRISPR-GATE aims to streamline the search for CRISPR resources, facilitating both education and accelerating innovation. The web repository can be accessed from https:\/\/crispr-gate.daasbioinfromaticsteam.in\/.<\/jats:p>","DOI":"10.1093\/bib\/bbaf575","type":"journal-article","created":{"date-parts":[[2025,10,13]],"date-time":"2025-10-13T13:10:11Z","timestamp":1760361011000},"source":"Crossref","is-referenced-by-count":1,"title":["CRISPR-GATE: a one-stop repository and guide to computational resources for genome editing experimentation"],"prefix":"10.1093","volume":"26","author":[{"given":"Asif Ali","family":"Vadakkethil","sequence":"first","affiliation":[{"name":"The Graduate School, ICAR-Indian Agricultural Research Institute, PUSA Campus, New Delhi \u00a0 110012 ,","place":["India"]},{"name":"Division of Agricultural Bioinformatics, ICAR-Indian Agricultural Statistics Research Institute, Library Avenue, New Delhi \u00a0 110012 ,","place":["India"]}]},{"given":"Sonali","family":"Panda","sequence":"additional","affiliation":[{"name":"ICAR- Central Rice Research Institute , Cuttack 753006, Odisha ,","place":["India"]},{"name":"Department of Botany, Ravenshaw University , Cuttack 753003, Odisha ,","place":["India"]}]},{"given":"Aranya","family":"Mitra","sequence":"additional","affiliation":[{"name":"Institute of Health Sciences, Presidency University , Kolkata, West Bengal 700156 ,","place":["India"]}]},{"given":"Manaswini","family":"Dash","sequence":"additional","affiliation":[{"name":"ICAR- Central Rice Research Institute , Cuttack 753006, Odisha ,","place":["India"]}]},{"given":"Mirza J","family":"Baig","sequence":"additional","affiliation":[{"name":"ICAR- Central Rice Research Institute , Cuttack 753006, Odisha ,","place":["India"]}]},{"given":"Ulavappa B","family":"Angadi","sequence":"additional","affiliation":[{"name":"Division of Agricultural Bioinformatics, ICAR-Indian Agricultural Statistics Research Institute, Library Avenue, New Delhi \u00a0 110012 ,","place":["India"]}]},{"given":"Dinesh","family":"Kumar","sequence":"additional","affiliation":[{"name":"Division of Agricultural Bioinformatics, ICAR-Indian Agricultural Statistics Research Institute, Library Avenue, New Delhi \u00a0 110012 ,","place":["India"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9948-4994","authenticated-orcid":false,"given":"Sarika","family":"Jaiswal","sequence":"additional","affiliation":[{"name":"Division of Agricultural Bioinformatics, ICAR-Indian Agricultural Statistics Research Institute, Library Avenue, New Delhi \u00a0 110012 ,","place":["India"]}]},{"given":"Mir","family":"Asif Iquebal","sequence":"additional","affiliation":[{"name":"Division of Agricultural Bioinformatics, ICAR-Indian Agricultural Statistics Research Institute, Library Avenue, New Delhi \u00a0 110012 ,","place":["India"]}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9897-7906","authenticated-orcid":false,"given":"Kutubuddin A","family":"Molla","sequence":"additional","affiliation":[{"name":"ICAR- Central Rice Research Institute , Cuttack 753006, Odisha 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