{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,21]],"date-time":"2026-10-21T06:33:52Z","timestamp":1792564432737,"version":"4.5.0"},"reference-count":8,"publisher":"Oxford University Press (OUP)","issue":"14","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2015,7,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Motivation: Analysis of RNA sequencing (RNA-Seq) data revealed that the vast majority of human genes express multiple mRNA isoforms, produced by alternative pre-mRNA splicing and other mechanisms, and that most alternative isoforms vary in expression between human tissues. As RNA-Seq datasets grow in size, it remains challenging to visualize isoform expression across multiple samples.<\/jats:p>\n                  <jats:p>Results: To help address this problem, we present Sashimi plots, a quantitative visualization of aligned RNA-Seq reads that enables quantitative comparison of exon usage across samples or experimental conditions. Sashimi plots can be made using the Broad Integrated Genome Viewer or with a stand-alone command line program.<\/jats:p>\n                  <jats:p>Availability and implementation: Software code and documentation freely available here: http:\/\/miso.readthedocs.org\/en\/fastmiso\/sashimi.html<\/jats:p>\n                  <jats:p>Contact: \u00a0mesirov@broadinstitute.org, airoldi@fas.harvard.edu or cburge@mit.edu<\/jats:p>\n                  <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btv034","type":"journal-article","created":{"date-parts":[[2015,1,23]],"date-time":"2015-01-23T23:27:59Z","timestamp":1422055679000},"page":"2400-2402","source":"Crossref","is-referenced-by-count":184,"title":["Quantitative visualization of alternative exon expression from RNA-seq data"],"prefix":"10.1093","volume":"31","author":[{"given":"Yarden","family":"Katz","sequence":"first","affiliation":[{"name":"1 Department of Brain and Cognitive Sciences, MIT, Cambridge, MA,"},{"name":"2 Department of Biology, MIT, Cambridge, MA,"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eric T.","family":"Wang","sequence":"additional","affiliation":[{"name":"2 Department of Biology, MIT, Cambridge, MA,"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jacob","family":"Silterra","sequence":"additional","affiliation":[{"name":"3 The Broad Institute of Harvard, MIT, Cambridge, MA, USA,"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Schraga","family":"Schwartz","sequence":"additional","affiliation":[{"name":"3 The Broad Institute of Harvard, MIT, Cambridge, MA, USA,"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bang","family":"Wong","sequence":"additional","affiliation":[{"name":"3 The Broad Institute of Harvard, MIT, Cambridge, MA, USA,"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Helga","family":"Thorvaldsd\u00f3ttir","sequence":"additional","affiliation":[{"name":"3 The Broad Institute of Harvard, MIT, Cambridge, MA, USA,"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"James T.","family":"Robinson","sequence":"additional","affiliation":[{"name":"3 The Broad Institute of Harvard, MIT, Cambridge, MA, USA,"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jill P.","family":"Mesirov","sequence":"additional","affiliation":[{"name":"3 The Broad Institute of Harvard, MIT, Cambridge, MA, USA,"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Edoardo M.","family":"Airoldi","sequence":"additional","affiliation":[{"name":"3 The Broad Institute of Harvard, MIT, Cambridge, MA, USA,"},{"name":"4 Department of Statistics, Harvard University, Cambridge, MA, USA and"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christopher B.","family":"Burge","sequence":"additional","affiliation":[{"name":"2 Department of Biology, MIT, Cambridge, MA,"},{"name":"5 Department of Biological Engineering, MIT, Cambridge, MA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2015,1,22]]},"reference":[{"key":"2023020202153933700_btv034-B1","doi-asserted-by":"crossref","first-page":"1009","DOI":"10.1038\/nmeth.1528","article-title":"Analysis and design of RNA sequencing experiments for identifying isoform regulation","volume":"7","author":"Katz","year":"2010","journal-title":"Nat. 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