{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,25]],"date-time":"2026-06-25T08:35:38Z","timestamp":1782376538423,"version":"3.54.5"},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"2","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,1,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: DOOSS (Data Overlaid On Secondary Structures) is a tool for visualizing annotated secondary structures of large single-stranded nucleotide sequences (such as full-length virus genomes). The purpose of this tool is to assist investigators in evaluating the biological relevance of secondary structures within particular sequences.<\/jats:p>\n               <jats:p>Availability and implementation: DOOSS is written in Java and is available from: http:\/\/dooss.computingforbiology.org<\/jats:p>\n               <jats:p>Contact: \u00a0michaelgolden0@gmail.com<\/jats:p>\n               <jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/bts667","type":"journal-article","created":{"date-parts":[[2012,11,23]],"date-time":"2012-11-23T03:52:09Z","timestamp":1353642729000},"page":"271-272","source":"Crossref","is-referenced-by-count":5,"title":["DOOSS: a tool for visual analysis of data overlaid on secondary structures"],"prefix":"10.1093","volume":"29","author":[{"given":"Michael","family":"Golden","sequence":"first","affiliation":[{"name":"Computational Biology Group, Institute of Infectious Diseases and Molecular Medicine, University of Cape Town, Cape Town 4579, South Africa"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Darren","family":"Martin","sequence":"additional","affiliation":[{"name":"Computational Biology Group, Institute of Infectious Diseases and Molecular Medicine, University of Cape Town, Cape Town 4579, South Africa"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2012,11,21]]},"reference":[{"key":"2023012810172983900_bts667-B1","doi-asserted-by":"crossref","first-page":"1974","DOI":"10.1093\/bioinformatics\/btp250","article-title":"VARNA: interactive drawing and editing of the RNA secondary structure","volume":"25","author":"Darty","year":"2009","journal-title":"Bioinformatics"},{"key":"2023012810172983900_bts667-B2","doi-asserted-by":"crossref","first-page":"1792","DOI":"10.1093\/nar\/gkh340","article-title":"MUSCLE: multiple sequence alignment with high accuracy and high throughput","volume":"32","author":"Edgar","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"2023012810172983900_bts667-B3","doi-asserted-by":"crossref","first-page":"1059","DOI":"10.1016\/S0022-2836(02)00308-X","article-title":"Secondary structure prediction for aligned RNA sequences","volume":"319","author":"Hofacker","year":"2002","journal-title":"J. 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