{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,20]],"date-time":"2026-06-20T00:22:09Z","timestamp":1781914929894,"version":"3.54.5"},"reference-count":18,"publisher":"Oxford University Press (OUP)","issue":"18","license":[{"start":{"date-parts":[[2019,2,6]],"date-time":"2019-02-06T00:00:00Z","timestamp":1549411200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,9,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Riboswitches are cis-regulatory non-coding genomic segments that control the expression of downstream genes by undergoing conformational change upon ligand binding. We present a comprehensive database of prokaryotic riboswitches that allows the user to search for riboswitches using multiple criteria, extract information about riboswitch location and gene\/operon it regulates. RiboD provides a very useful resource that can be utilized for the better understanding of riboswitch-based gene regulation in bacteria and archaea.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>RiboD can be freely accessed on the web at http:\/\/ribod.iiserkol.ac.in\/.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btz093","type":"journal-article","created":{"date-parts":[[2019,2,5]],"date-time":"2019-02-05T12:33:02Z","timestamp":1549369982000},"page":"3541-3543","source":"Crossref","is-referenced-by-count":27,"title":["RiboD: a comprehensive database for prokaryotic riboswitches"],"prefix":"10.1093","volume":"35","author":[{"given":"Sumit","family":"Mukherjee","sequence":"first","affiliation":[{"name":"Department of Physical Sciences, Indian Institute of Science Education and Research Kolkata , Mohanpur-741246, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sukhen","family":"Das Mandal","sequence":"additional","affiliation":[{"name":"Department of Biological Sciences, Indian Institute of Science Education and Research Kolkata , Mohanpur-741246, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nikita","family":"Gupta","sequence":"additional","affiliation":[{"name":"Department of Pharmaceutical Engineering & Technology, Indian Institute of Technology (BHU) Varanasi , Varanasi, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matan","family":"Drory-Retwitzer","sequence":"additional","affiliation":[{"name":"Department of Computer Science, Ben-Gurion University , Beer-Sheva, Israel"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Danny","family":"Barash","sequence":"additional","affiliation":[{"name":"Department of Computer Science, Ben-Gurion University , Beer-Sheva, Israel"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5294-0561","authenticated-orcid":false,"given":"Supratim","family":"Sengupta","sequence":"additional","affiliation":[{"name":"Department of Physical Sciences, Indian Institute of Science Education and Research Kolkata , Mohanpur-741246, India"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2019,2,6]]},"reference":[{"key":"2023013108045270700_btz093-B1","doi-asserted-by":"crossref","first-page":"R239.","DOI":"10.1186\/gb-2007-8-11-r239","article-title":"The distributions, mechanisms, and structures of metabolite-binding riboswitches","volume":"8","author":"Barrick","year":"2007","journal-title":"Genome Biol"},{"key":"2023013108045270700_btz093-B2","doi-asserted-by":"crossref","first-page":"1558","DOI":"10.1038\/nbt1268","article-title":"Riboswitches as antibacterial drug targets","volume":"24","author":"Blount","year":"2006","journal-title":"Nat. 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Biol"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/18\/3541\/48974980\/bioinformatics_35_18_3541.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/18\/3541\/48974980\/bioinformatics_35_18_3541.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,31]],"date-time":"2023-01-31T13:32:19Z","timestamp":1675171939000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/35\/18\/3541\/5307751"}},"subtitle":[],"editor":[{"given":"Jonathan","family":"Wren","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2019,2,6]]},"references-count":18,"journal-issue":{"issue":"18","published-print":{"date-parts":[[2019,9,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btz093","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2019,9,15]]},"published":{"date-parts":[[2019,2,6]]}}}