{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:34:44Z","timestamp":1772138084432,"version":"3.50.1"},"reference-count":12,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2017,9,14]],"date-time":"2017-09-14T00:00:00Z","timestamp":1505347200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/about_us\/legal\/notices"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>CRISPR-Cas systems have been successfully applied in genome editing. Recently, the CRISPR-C2c2 system has been reported as a tool for RNA editing. Here we describe CRISPR-RT (CRISPR RNA-Targeting), the first web application to help biologists design crRNAs with improved target specificity for the CRISPR-C2c2 system. CRISPR-RT allows users to set up a wide range of parameters, making it highly flexible for current and future research in CRISPR-based RNA editing. CRISPR-RT covers major model organisms and can be easily extended to cover other species. CRISPR-RT will empower researchers in RNA editing.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Freely available at http:\/\/bioinfolab.miamioh.edu\/CRISPR-RT.<\/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\/btx580","type":"journal-article","created":{"date-parts":[[2017,9,13]],"date-time":"2017-09-13T15:13:03Z","timestamp":1505315583000},"page":"117-119","source":"Crossref","is-referenced-by-count":29,"title":["CRISPR-RT: a web application for designing CRISPR-C2c2 crRNA with improved target specificity"],"prefix":"10.1093","volume":"34","author":[{"given":"Houxiang","family":"Zhu","sequence":"first","affiliation":[{"name":"Department of Biology, Miami University, Oxford, OH, USA"}]},{"given":"Emily","family":"Richmond","sequence":"additional","affiliation":[{"name":"Department of Computer Science and Software Engineering, Miami University, Oxford, OH, USA"}]},{"given":"Chun","family":"Liang","sequence":"additional","affiliation":[{"name":"Department of Biology, Miami University, Oxford, OH, USA"},{"name":"Department of Computer Science and Software Engineering, Miami University, Oxford, OH, USA"}]}],"member":"286","published-online":{"date-parts":[[2017,9,14]]},"reference":[{"key":"2023020208303121100_btx580-B1","doi-asserted-by":"crossref","first-page":"aaf5573.","DOI":"10.1126\/science.aaf5573","article-title":"C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector","volume":"353","author":"Abudayyeh","year":"2016","journal-title":"Science"},{"key":"2023020208303121100_btx580-B2","doi-asserted-by":"crossref","first-page":"270","DOI":"10.1038\/nature19802","article-title":"Two distinct RNase activities of CRISPR-C2c2 enable guide-RNA processing and RNA detection","volume":"538","author":"East-Seletsky","year":"2016","journal-title":"Nature"},{"key":"2023020208303121100_btx580-B3","doi-asserted-by":"crossref","first-page":"1043","DOI":"10.1038\/nmeth.4042","article-title":"Complex transcriptional modulation with orthogonal and inducible dCas9 regulators","volume":"13","author":"Gao","year":"2016","journal-title":"Nat. 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Cell"},{"key":"2023020208303121100_btx580-B10","doi-asserted-by":"crossref","first-page":"1630","DOI":"10.1101\/gr.094607.109","article-title":"JBrowse: a next-generation genome browser","volume":"19","author":"Skinner","year":"2009","journal-title":"Genome Res"},{"key":"2023020208303121100_btx580-B11","doi-asserted-by":"crossref","first-page":"875","DOI":"10.1016\/j.tcb.2016.08.004","article-title":"Applications of CRISPR genome engineering in cell biology","volume":"26","author":"Wang","year":"2016","journal-title":"Trends Cell Biol"},{"key":"2023020208303121100_btx580-B12","doi-asserted-by":"crossref","first-page":"139","DOI":"10.1038\/nbt.3149","article-title":"A split-Cas9 architecture for inducible genome editing and transcription modulation","volume":"33","author":"Zetsche","year":"2015","journal-title":"Nat. Biotechnol"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/34\/1\/117\/49043435\/bioinformatics_34_1_117.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/34\/1\/117\/49043435\/bioinformatics_34_1_117.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,2]],"date-time":"2023-02-02T03:40:12Z","timestamp":1675309212000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/34\/1\/117\/4158036"}},"subtitle":[],"editor":[{"given":"Ivo","family":"Hofacker","sequence":"additional","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2017,9,14]]},"references-count":12,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2018,1,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btx580","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/099895","asserted-by":"object"}]},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2018,1,1]]},"published":{"date-parts":[[2017,9,14]]}}}