{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,22]],"date-time":"2025-02-22T00:45:05Z","timestamp":1740185105562,"version":"3.37.3"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2020,7,27]],"date-time":"2020-07-27T00:00:00Z","timestamp":1595808000000},"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\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31700081","31570092"],"award-info":[{"award-number":["31700081","31570092"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2019YFA09004300","2018YFA0900700","2017YFC1601702"],"award-info":[{"award-number":["2019YFA09004300","2018YFA0900700","2017YFC1601702"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Scientific Research Conditions and Technical Support System Program","award":["ZSYS-016"],"award-info":[{"award-number":["ZSYS-016"]}]},{"name":"CAS STS program","award":["QYZDB-SSW-SMC012"],"award-info":[{"award-number":["QYZDB-SSW-SMC012"]}]},{"name":"International Partnership Program of Chinese Academy of Sciences of China","award":["153D31KYSB20170121"],"award-info":[{"award-number":["153D31KYSB20170121"]}]},{"DOI":"10.13039\/501100006606","name":"Natural Science Foundation of Tianjin","doi-asserted-by":"publisher","award":["15JCYBJC54300"],"award-info":[{"award-number":["15JCYBJC54300"]}],"id":[{"id":"10.13039\/501100006606","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,4,20]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Rapid advances in sequencing technology have resulted huge increases in the accessibility of sequencing data. Moreover, researchers are focusing more on organisms that lack a reference genome. However, few easy-to-use web servers focusing on annotations of enzymatic functions are available. Accordingly, in this study, we describe Transcriptor, a novel platform for annotating transcripts encoding enzymes.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>The transcripts were evaluated using more than 300\u2009000 in-house enzymatic reactions through bridges of Enzyme Commission numbers. Transcriptor also enabled ontology term identification and along with associated enzymes, visualization and prediction of domains and annotation of regulatory structure, such as long noncoding RNAs, which could facilitate the discovery of new functions in model or nonmodel species. Transcriptor may have applications in elucidation of the roles of organs transcriptomes and secondary metabolite biosynthesis in organisms lacking a reference genome.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>Transcriptor is available at http:\/\/design.rxnfinder.org\/transcriptor\/.<\/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\/btaa685","type":"journal-article","created":{"date-parts":[[2020,7,22]],"date-time":"2020-07-22T19:24:53Z","timestamp":1595445893000},"page":"434-435","source":"Crossref","is-referenced-by-count":1,"title":["Transcriptor: a comprehensive platform for annotation of the enzymatic functions of transcripts"],"prefix":"10.1093","volume":"37","author":[{"given":"Ailin","family":"Ren","sequence":"first","affiliation":[{"name":"Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences , Tianjin 300308, P. R. China"},{"name":"University of Chinese Academy of Sciences , Beijing 100864, P. R. China"}]},{"given":"Dachuan","family":"Zhang","sequence":"additional","affiliation":[{"name":"CAS Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Chinese Academy of Sciences , Shanghai 200333, P. R. China"},{"name":"University of Chinese Academy of Sciences , Beijing 100864, P. R. China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8079-6149","authenticated-orcid":false,"given":"Yu","family":"Tian","sequence":"additional","affiliation":[{"name":"Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences , Tianjin 300308, P. R. China"},{"name":"University of Chinese Academy of Sciences , Beijing 100864, P. R. China"}]},{"given":"Pengli","family":"Cai","sequence":"additional","affiliation":[{"name":"Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences , Tianjin 300308, P. R. 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