{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,15]],"date-time":"2026-04-15T03:19:05Z","timestamp":1776223145501,"version":"3.50.1"},"reference-count":5,"publisher":"Oxford University Press (OUP)","issue":"20","license":[{"start":{"date-parts":[[2016,11,7]],"date-time":"2016-11-07T00:00:00Z","timestamp":1478476800000},"content-version":"vor","delay-in-days":857,"URL":"http:\/\/creativecommons.org\/licenses\/by\/3.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014,10,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Today's graphics processing units (GPUs) compose the scene from individual triangles. As about 320 triangles are needed to approximate a single sphere\u2014an atom\u2014in a convincing way, visualizing larger proteins with atomic details requires tens of millions of triangles, far too many for smooth interactive frame rates. We describe a new approach to solve this \u2018molecular graphics problem\u2019, which shares the work between GPU and multiple CPU cores, generates high-quality results with perfectly round spheres, shadows and ambient lighting and requires only OpenGL 1.0 functionality, without any pixel shader Z -buffer access (a feature which is missing in most mobile devices).<\/jats:p>\n               <jats:p>Availability and implementation: YASARA View, a molecular modeling program built around the visualization algorithm described here, is freely available (including commercial use) for Linux, MacOS, Windows and Android (Intel) from www.YASARA.org .<\/jats:p>\n               <jats:p>Contact: \u00a0elmar@yasara.org<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btu426","type":"journal-article","created":{"date-parts":[[2014,7,5]],"date-time":"2014-07-05T02:02:58Z","timestamp":1404525778000},"page":"2981-2982","source":"Crossref","is-referenced-by-count":1377,"title":["YASARA View\u2014molecular graphics for all devices\u2014from smartphones to workstations"],"prefix":"10.1093","volume":"30","author":[{"given":"Elmar","family":"Krieger","sequence":"first","affiliation":[{"name":"Centre for Molecular and Biomolecular Informatics, NCMLS, Radboud University Nijmegen Medical Centre, 6500 HB Nijmegen, the Netherlands"}]},{"given":"Gert","family":"Vriend","sequence":"additional","affiliation":[{"name":"Centre for Molecular and Biomolecular Informatics, NCMLS, Radboud University Nijmegen Medical Centre, 6500 HB Nijmegen, the Netherlands"}]}],"member":"286","published-online":{"date-parts":[[2014,7,4]]},"reference":[{"key":"2023012711560810600_btu426-B1","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1016\/S1359-6446(04)03363-X","article-title":"The case for open-source software in drug discovery","volume":"10","author":"DeLano","year":"2005","journal-title":"Drug Discov. Today"},{"key":"2023012711560810600_btu426-B2","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1016\/0263-7855(96)00018-5","article-title":"VMD: visual molecular dynamics","volume":"14","author":"Humphrey","year":"1996","journal-title":"J. Mol. Graph."},{"key":"2023012711560810600_btu426-B3","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1038\/scientificamerican0666-42","article-title":"Molecular model-building by computer","volume":"214","author":"Levinthal","year":"1966","journal-title":"Sci. Am."},{"key":"2023012711560810600_btu426-B4","doi-asserted-by":"crossref","first-page":"1605","DOI":"10.1002\/jcc.20084","article-title":"UCSF Chimera\u2014a visualization system for exploratory research and analysis","volume":"25","author":"Pettersen","year":"2004","journal-title":"J. Comput. Chem."},{"key":"2023012711560810600_btu426-B5","doi-asserted-by":"crossref","first-page":"1237","DOI":"10.1109\/TVCG.2006.115","article-title":"Ambient occlusion and edge cueing for enhancing real time molecular visualization","volume":"12","author":"Tarini","year":"2006","journal-title":"IEEE Trans. Vis. Comp. Graph."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/30\/20\/2981\/48929879\/bioinformatics_30_20_2981.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/30\/20\/2981\/48929879\/bioinformatics_30_20_2981.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,27]],"date-time":"2023-01-27T12:22:42Z","timestamp":1674822162000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/30\/20\/2981\/2422272"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,7,4]]},"references-count":5,"journal-issue":{"issue":"20","published-print":{"date-parts":[[2014,10,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btu426","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2014,10,15]]},"published":{"date-parts":[[2014,7,4]]}}}