{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,2]],"date-time":"2026-04-02T18:31:00Z","timestamp":1775154660138,"version":"3.50.1"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"14","license":[{"start":{"date-parts":[[2018,11,30]],"date-time":"2018-11-30T00:00:00Z","timestamp":1543536000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2016YFD0101003"],"award-info":[{"award-number":["2016YFD0101003"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012226","name":"Fundamental Research Funds for the Central Universities","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100012226","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31571351"],"award-info":[{"award-number":["31571351"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Post-doctoral Talent Innovation Program","award":["BX201700092"],"award-info":[{"award-number":["BX201700092"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,7,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>CRISPR-Local is a high-throughput local tool for designing single-guide RNAs (sgRNAs) in plants and other organisms that factors in genetic variation and is optimized to generate genome-wide sgRNAs. CRISPR-Local outperforms other sgRNA design tools in the following respects: (i) designing sgRNAs suitable for non-reference varieties; (ii) screening for sgRNAs that are capable of simultaneously targeting multiple genes; (iii) saving computational resources by avoiding repeated calculations from multiple submissions and (iv) running offline, with both command-line and graphical user interface modes and the ability to export multiple formats for further batch analysis or visualization. We have applied CRISPR-Local to 71 public plant genomes, using both CRISPR\/Cas9 and CRISPR\/cpf1 systems.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>CRISPR-Local can be freely downloaded from http:\/\/crispr.hzau.edu.cn\/CRISPR-Local\/.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/bty970","type":"journal-article","created":{"date-parts":[[2018,11,29]],"date-time":"2018-11-29T13:34:53Z","timestamp":1543498493000},"page":"2501-2503","source":"Crossref","is-referenced-by-count":50,"title":["CRISPR-Local: a local single-guide RNA (sgRNA) design tool for non-reference plant genomes"],"prefix":"10.1093","volume":"35","author":[{"given":"Jiamin","family":"Sun","sequence":"first","affiliation":[{"name":"National Key Laboratory of Crop Genetic Improvement"}]},{"given":"Hao","family":"Liu","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Crop Genetic Improvement"},{"name":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, People\u2019s Republic of China"}]},{"given":"Jianxiao","family":"Liu","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Crop Genetic Improvement"},{"name":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, People\u2019s Republic of China"}]},{"given":"Shikun","family":"Cheng","sequence":"additional","affiliation":[{"name":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, People\u2019s Republic of China"}]},{"given":"Yong","family":"Peng","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Crop Genetic Improvement"}]},{"given":"Qinghua","family":"Zhang","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Crop Genetic Improvement"}]},{"given":"Jianbing","family":"Yan","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Crop Genetic Improvement"}]},{"given":"Hai-Jun","family":"Liu","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Crop Genetic Improvement"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3005-526X","authenticated-orcid":false,"given":"Ling-Ling","family":"Chen","sequence":"additional","affiliation":[{"name":"National Key Laboratory of Crop Genetic Improvement"},{"name":"Hubei Key Laboratory of Agricultural Bioinformatics, College of Informatics, Huazhong Agricultural University, Wuhan, People\u2019s Republic of China"}]}],"member":"286","published-online":{"date-parts":[[2018,11,30]]},"reference":[{"key":"2023062712303765700_bty970-B2","doi-asserted-by":"crossref","first-page":"D18","DOI":"10.1093\/nar\/gkw1060","article-title":"The BIG Data Center: from deposition to integration to translation","volume":"45","year":"2017","journal-title":"Nucleic Acids Res"},{"key":"2023062712303765700_bty970-B3","doi-asserted-by":"crossref","first-page":"184","DOI":"10.1038\/nbt.3437","article-title":"Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9","volume":"34","author":"Doench","year":"2016","journal-title":"Nat. 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