{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,30]],"date-time":"2025-07-30T11:43:55Z","timestamp":1753875835925,"version":"3.41.2"},"reference-count":14,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2023,3,1]],"date-time":"2023-03-01T00:00:00Z","timestamp":1677628800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000051","name":"National Human Genome Research Institute","doi-asserted-by":"publisher","award":["HG011868"],"award-info":[{"award-number":["HG011868"]}],"id":[{"id":"10.13039\/100000051","id-type":"DOI","asserted-by":"publisher"}]},{"name":"National Science Foundation Graduate Research Fellowship Program","award":["DGE-2139841"],"award-info":[{"award-number":["DGE-2139841"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2023,3,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Motivation<\/jats:title><jats:p>The increasing availability of RNA structural information that spans many kilobases of transcript sequence imposes a need for tools that can rapidly screen, identify, and prioritize structural modules of interest.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>We describe RNA Structural Content Scanner (RSCanner), an automated tool that scans RNA transcripts for regions that contain high levels of secondary structure and then classifies each region for its relative propensity to adopt stable or dynamic structures. RSCanner then generates an intuitive heatmap enabling users to rapidly pinpoint regions likely to contain a high or low density of discrete RNA structures, thereby informing downstream functional or structural investigation.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>RSCanner is freely available as both R script and R Markdown files, along with full documentation and test data (https:\/\/github.com\/pylelab\/RSCanner).<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btad111","type":"journal-article","created":{"date-parts":[[2023,3,1]],"date-time":"2023-03-01T20:27:29Z","timestamp":1677702449000},"source":"Crossref","is-referenced-by-count":1,"title":["RSCanner: rapid assessment and visualization of RNA structure content"],"prefix":"10.1093","volume":"39","author":[{"given":"Gandhar","family":"Mahadeshwar","sequence":"first","affiliation":[{"name":"Department of Molecular Biophysics and Biochemistry, Yale University , New Haven, CT 06511, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0278-1528","authenticated-orcid":false,"given":"Rafael de Cesaris Araujo","family":"Tavares","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Yale University , New Haven, CT 06511, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Han","family":"Wan","sequence":"additional","affiliation":[{"name":"Department of Molecular, Cellular and Developmental Biology, Yale University , New Haven, CT 06511, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8375-8436","authenticated-orcid":false,"given":"Zion R","family":"Perry","sequence":"additional","affiliation":[{"name":"Department of Molecular Biophysics and Biochemistry, Yale University , New Haven, CT 06511, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Anna Marie","family":"Pyle","sequence":"additional","affiliation":[{"name":"Department of Chemistry, Yale University , New Haven, CT 06511, United States"},{"name":"Department of Molecular, Cellular and Developmental Biology, Yale University , New Haven, CT 06511, United States"},{"name":"Howard Hughes Medical Institute , Chevy Chase, MD 20815, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2023,3,1]]},"reference":[{"key":"2023031520161130600_","doi-asserted-by":"crossref","first-page":"7122","DOI":"10.1093\/nar\/gkab462","article-title":"Three-dimensional structure of a flavivirus dumbbell RNA reveals molecular details of an RNA regulator of replication","volume":"49","author":"Akiyama","year":"2021","journal-title":"Nucleic Acids Res"},{"key":"2023031520161130600_","doi-asserted-by":"crossref","first-page":"8493","DOI":"10.1093\/nar\/gkx502","article-title":"Visualization of conformational variability in the domains 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