{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,11]],"date-time":"2026-04-11T13:54:09Z","timestamp":1775915649723,"version":"3.50.1"},"reference-count":14,"publisher":"World Scientific Pub Co Pte Lt","issue":"06","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J. Bioinform. Comput. Biol."],"published-print":{"date-parts":[[2016,12]]},"abstract":"<jats:p> Motivation: Model simulation exchange has been standardized with the Simulation Experiment Description Markup Language (SED-ML), but specialized software is needed to generate simulations in this format. Text-based languages allow researchers to create and modify experimental protocols quickly and easily, and export them to a common machine-readable format. Results: phraSED-ML language allows modelers to use simple text commands to encode various elements of SED-ML (models, tasks, simulations, and results) in a format easy to read and modify. The library can translate this script to SED-ML for use in other softwares. Availability: phraSED-ML language specification, libphrasedml library, and source code are available under BSD license from http:\/\/phrasedml.sourceforge.net\/ . <\/jats:p>","DOI":"10.1142\/s0219720016500359","type":"journal-article","created":{"date-parts":[[2016,9,30]],"date-time":"2016-09-30T04:17:47Z","timestamp":1475209067000},"page":"1650035","source":"Crossref","is-referenced-by-count":14,"title":["phraSED-ML: A paraphrased, human-readable adaptation of SED-ML"],"prefix":"10.1142","volume":"14","author":[{"given":"Kiri","family":"Choi","sequence":"first","affiliation":[{"name":"University of Washington, Department of Bioengineering, Seattle, WA, USA"}]},{"given":"Lucian P.","family":"Smith","sequence":"additional","affiliation":[{"name":"University of Washington, Department of Bioengineering, Seattle, WA, USA"}]},{"given":"J. Kyle","family":"Medley","sequence":"additional","affiliation":[{"name":"University of Washington, Department of Bioengineering, Seattle, WA, USA"}]},{"given":"Herbert M.","family":"Sauro","sequence":"additional","affiliation":[{"name":"University of Washington, Department of Bioengineering, Seattle, WA, USA"}]}],"member":"219","published-online":{"date-parts":[[2017,1,11]]},"reference":[{"key":"S0219720016500359BIB001","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btg015"},{"key":"S0219720016500359BIB002","doi-asserted-by":"publisher","DOI":"10.1016\/j.pbiomolbio.2004.01.004"},{"key":"S0219720016500359BIB003","doi-asserted-by":"publisher","DOI":"10.1186\/1752-0509-5-198"},{"key":"S0219720016500359BIB005","doi-asserted-by":"publisher","DOI":"10.1038\/msb.2011.77"},{"key":"S0219720016500359BIB006","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btv363"},{"key":"S0219720016500359BIB008","doi-asserted-by":"publisher","DOI":"10.1186\/1752-0509-7-55"},{"key":"S0219720016500359BIB009","doi-asserted-by":"publisher","DOI":"10.1038\/npre.2011.6105.1"},{"key":"S0219720016500359BIB010","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bts101"},{"key":"S0219720016500359BIB011","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btl485"},{"key":"S0219720016500359BIB012","doi-asserted-by":"publisher","DOI":"10.1016\/S1478-5382(03)02370-9"},{"key":"S0219720016500359BIB013","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp401"},{"key":"S0219720016500359BIB014","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btn051"},{"key":"S0219720016500359BIB015","doi-asserted-by":"publisher","DOI":"10.1046\/j.1432-1327.2000.01197.x"},{"key":"S0219720016500359BIB016","doi-asserted-by":"publisher","DOI":"10.1175\/1520-0469(1963)020<0130:DNF>2.0.CO;2"}],"container-title":["Journal of Bioinformatics and Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.worldscientific.com\/doi\/pdf\/10.1142\/S0219720016500359","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,8,6]],"date-time":"2019-08-06T20:42:52Z","timestamp":1565124172000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.worldscientific.com\/doi\/abs\/10.1142\/S0219720016500359"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016,12]]},"references-count":14,"journal-issue":{"issue":"06","published-online":{"date-parts":[[2017,1,11]]},"published-print":{"date-parts":[[2016,12]]}},"alternative-id":["10.1142\/S0219720016500359"],"URL":"https:\/\/doi.org\/10.1142\/s0219720016500359","relation":{},"ISSN":["0219-7200","1757-6334"],"issn-type":[{"value":"0219-7200","type":"print"},{"value":"1757-6334","type":"electronic"}],"subject":[],"published":{"date-parts":[[2016,12]]}}}