{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,12]],"date-time":"2026-03-12T09:54:00Z","timestamp":1773309240952,"version":"3.50.1"},"reference-count":8,"publisher":"Oxford University Press (OUP)","issue":"16","license":[{"start":{"date-parts":[[2016,10,28]],"date-time":"2016-10-28T00:00:00Z","timestamp":1477612800000},"content-version":"vor","delay-in-days":204,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016,8,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Summary: One gene can produce multiple transcript variants encoding proteins with different functions. To facilitate visual analysis of transcript variants, we developed ProtAnnot, which shows protein annotations in the context of genomic sequence. ProtAnnot searches InterPro and displays profile matches (protein annotations) alongside gene models, exposing how alternative promoters, splicing and 3\u2032 end processing add, remove, or remodel functional motifs. To draw attention to these effects, ProtAnnot color-codes exons by frame and displays a cityscape graphic summarizing exonic sequence at each position. These techniques make visual analysis of alternative transcripts faster and more convenient for biologists.<\/jats:p>\n                  <jats:p>Availability and implementation: ProtAnnot is a plug-in App for Integrated Genome Browser, an open source desktop genome browser available from http:\/\/www.bioviz.org.<\/jats:p>\n                  <jats:p>Contact: \u00a0aloraine@uncc.edu<\/jats:p>","DOI":"10.1093\/bioinformatics\/btw068","type":"journal-article","created":{"date-parts":[[2016,4,8]],"date-time":"2016-04-08T14:25:27Z","timestamp":1460125527000},"page":"2499-2501","source":"Crossref","is-referenced-by-count":12,"title":["ProtAnnot: an App for Integrated Genome Browser to display how alternative splicing and transcription affect proteins"],"prefix":"10.1093","volume":"32","author":[{"given":"Tarun","family":"Mall","sequence":"first","affiliation":[{"name":"Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Kannapolis, NC 28081, USA"}]},{"given":"John","family":"Eckstein","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Kannapolis, NC 28081, USA"}]},{"given":"David","family":"Norris","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Kannapolis, NC 28081, USA"}]},{"given":"Hiral","family":"Vora","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Kannapolis, NC 28081, USA"}]},{"given":"Nowlan H.","family":"Freese","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Kannapolis, NC 28081, USA"}]},{"given":"Ann E.","family":"Loraine","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics and Genomics, University of North Carolina at Charlotte, Kannapolis, NC 28081, USA"}]}],"member":"286","published-online":{"date-parts":[[2016,4,7]]},"reference":[{"key":"2023020112531100400_btw068-B1","doi-asserted-by":"crossref","first-page":"3679","DOI":"10.1093\/bioinformatics\/btv431","article-title":"The MI bundle: enabling network and structural biology in genome visualization tools","volume":"31","author":"C\u00e9ol","year":"2015","journal-title":"Bioinformatics"},{"key":"2023020112531100400_btw068-B2","first-page":"17","article-title":"The effects of alternative splicing on transmembrane proteins in the mouse genome","author":"Cline","year":"2004","journal-title":"Pac. 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