{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,24]],"date-time":"2026-04-24T17:13:33Z","timestamp":1777050813279,"version":"3.51.4"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2016,10,12]],"date-time":"2016-10-12T00:00:00Z","timestamp":1476230400000},"content-version":"vor","delay-in-days":345,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Promoters have diverse regulatory architectures and thus activate genes differently. For example, some have a TATA-box, many others do not. Even the ones with it can differ in its position relative to the transcription start site (TSS). No Promoter Left Behind (NPLB) is an efficient, organism-independent method for characterizing such diverse architectures directly from experimentally identified genome-wide TSSs, without relying on known promoter elements. As a test case, we show its application in identifying novel architectures in the fly genome.<\/jats:p>\n               <jats:p>Availability and implementation: Web-server at http:\/\/nplb.ncl.res.in. Standalone also at https:\/\/github.com\/computationalBiology\/NPLB\/ (Mac OSX\/Linux).<\/jats:p>\n               <jats:p>Contact: \u00a0l.narlikar@ncl.res.in<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btv645","type":"journal-article","created":{"date-parts":[[2015,11,4]],"date-time":"2015-11-04T01:43:32Z","timestamp":1446601412000},"page":"779-781","source":"Crossref","is-referenced-by-count":8,"title":["No Promoter Left Behind (NPLB): learn <i>de novo<\/i> promoter architectures from genome-wide transcription start sites"],"prefix":"10.1093","volume":"32","author":[{"given":"Sneha","family":"Mitra","sequence":"first","affiliation":[{"name":"Chemical Engineering Division, CSIR-National Chemical Laboratory, Pune 411008, India"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Leelavati","family":"Narlikar","sequence":"additional","affiliation":[{"name":"Chemical Engineering Division, CSIR-National Chemical Laboratory, Pune 411008, India"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2015,11,2]]},"reference":[{"key":"2023020110451655600_btv645-B1","doi-asserted-by":"crossref","first-page":"1209","DOI":"10.1101\/gr.159384.113","article-title":"Comparative validation of D. melanogaster modENCODE transcriptome annotation","volume":"24","author":"Chen","year":"2014","journal-title":"Genome Res."},{"key":"2023020110451655600_btv645-B2","doi-asserted-by":"crossref","first-page":"1188","DOI":"10.1101\/gr.849004","article-title":"WebLogo: a sequence logo generator","volume":"14","author":"Crooks","year":"2004","journal-title":"Genome Res."},{"key":"2023020110451655600_btv645-B3","doi-asserted-by":"crossref","first-page":"W169","DOI":"10.1093\/nar\/gkm415","article-title":"DAVID bioinformatics resources: expanded annotation database and novel algorithms to better extract biology from large gene lists","volume":"35","author":"Huang","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"2023020110451655600_btv645-B4","doi-asserted-by":"crossref","first-page":"253","DOI":"10.1016\/j.ceb.2008.03.003","article-title":"The RNA polymerase II core promoter\u2014the gateway to transcription","volume":"20","author":"Juven-Gershon","year":"2008","journal-title":"Curr. 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Bioinform."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/32\/5\/779\/49017703\/bioinformatics_32_5_779.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/32\/5\/779\/49017703\/bioinformatics_32_5_779.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,2,1]],"date-time":"2023-02-01T22:02:20Z","timestamp":1675288940000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/32\/5\/779\/1744187"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2015,11,2]]},"references-count":10,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2016,3,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btv645","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2016,3,1]]},"published":{"date-parts":[[2015,11,2]]}}}