{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,2,22]],"date-time":"2025-02-22T00:45:25Z","timestamp":1740185125230,"version":"3.37.3"},"reference-count":14,"publisher":"Oxford University Press (OUP)","issue":"17","license":[{"start":{"date-parts":[[2021,1,29]],"date-time":"2021-01-29T00:00:00Z","timestamp":1611878400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000070","name":"NIBIB","doi-asserted-by":"publisher","award":["2-R01-EB014877-04A1"],"award-info":[{"award-number":["2-R01-EB014877-04A1"]}],"id":[{"id":"10.13039\/100000070","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,9,9]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>We present StochSS Live!, a web-based service for modeling, simulation and analysis of a wide range of mathematical, biological and biochemical systems. Using an epidemiological model of COVID-19, we demonstrate the power of StochSS Live! to enable researchers to quickly develop a deterministic or a discrete stochastic model, infer its parameters and analyze the results.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>StochSS Live! is freely available at https:\/\/live.stochss.org\/<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btab061","type":"journal-article","created":{"date-parts":[[2021,1,26]],"date-time":"2021-01-26T20:11:55Z","timestamp":1611691915000},"page":"2787-2788","source":"Crossref","is-referenced-by-count":5,"title":["Epidemiological modeling in <i>StochSS Live<\/i>!"],"prefix":"10.1093","volume":"37","author":[{"given":"Richard","family":"Jiang","sequence":"first","affiliation":[{"name":"Department of Computer Science, University of California-Santa Barbara , Santa Barbara, CA 93117, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bruno","family":"Jacob","sequence":"additional","affiliation":[{"name":"Department of Mechanical Engineering, University of California-Santa Barbara , Santa Barbara, CA 93106, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Matthew","family":"Geiger","sequence":"additional","affiliation":[{"name":"National Environmental Modeling and Analysis Center (NEMAC), University of North Carolina at Asheville , Asheville, NC 28804, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sean","family":"Matthew","sequence":"additional","affiliation":[{"name":"National Environmental Modeling and Analysis Center (NEMAC), University of North Carolina at Asheville , Asheville, NC 28804, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bryan","family":"Rumsey","sequence":"additional","affiliation":[{"name":"National Environmental Modeling and Analysis Center (NEMAC), University of North Carolina at Asheville , Asheville, NC 28804, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Prashant","family":"Singh","sequence":"additional","affiliation":[{"name":"Department of Information Technology, Uppsala University , Uppsala 751 05, Sweden"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fredrik","family":"Wrede","sequence":"additional","affiliation":[{"name":"Department of Information Technology, Uppsala University , Uppsala 751 05, Sweden"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tau-Mu","family":"Yi","sequence":"additional","affiliation":[{"name":"Department of Molecular, Cellular and Developmental Biology, University of California-Santa Barbara , Santa Barbara, CA 93106, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0543-8189","authenticated-orcid":false,"given":"Brian","family":"Drawert","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of North Carolina at Asheville , Asheville, NC 28804, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Andreas","family":"Hellander","sequence":"additional","affiliation":[{"name":"Department of Information Technology, Uppsala University , Uppsala 751 05, Sweden"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Linda","family":"Petzold","sequence":"additional","affiliation":[{"name":"Department of Computer Science, University of California-Santa Barbara , Santa Barbara, CA 93117, USA"},{"name":"Department of Mechanical Engineering, University of California-Santa Barbara , Santa Barbara, CA 93106, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2021,1,29]]},"reference":[{"key":"2023051609163862300_btab061-B1","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1109\/LLS.2017.2652448","article-title":"GillesPy: a python package for stochastic model building and simulation","volume":"2","author":"Abel","year":"2016","journal-title":"IEEE Life Sci. Lett"},{"key":"2023051609163862300_btab061-B2","doi-asserted-by":"crossref","first-page":"533","DOI":"10.1016\/S1473-3099(20)30120-1","article-title":"An interactive web-based dashboard to track covid-19 in real time","volume":"20","author":"Dong","year":"2020","journal-title":"Lancet Infect. Dis"},{"key":"2023051609163862300_btab061-B3","doi-asserted-by":"crossref","first-page":"e1005220","DOI":"10.1371\/journal.pcbi.1005220","article-title":"Stochastic simulation service: bridging the gap between the computational expert and the biologist","volume":"12","author":"Drawert","year":"2016","journal-title":"PLoS Comput. Biol"},{"key":"2023051609163862300_btab061-B4","doi-asserted-by":"crossref","first-page":"257","DOI":"10.1038\/s41586-020-2405-7","article-title":"Estimating the effects of non-pharmaceutical interventions on COVID-19 in Europe","volume":"584","author":"Flaxman","year":"2020","journal-title":"Nature"},{"key":"2023051609163862300_btab061-B5","doi-asserted-by":"crossref","first-page":"407","DOI":"10.20506\/rst.30.2.2045","article-title":"Principles of epidemiological modelling","volume":"30","author":"Garner","year":"2011","journal-title":"Rev. Sci. Tech. OIE"},{"key":"2023051609163862300_btab061-B6","doi-asserted-by":"crossref","first-page":"3067","DOI":"10.1093\/bioinformatics\/btl485","article-title":"COPASI\u2014a complex pathway simulator","volume":"22","author":"Hoops","year":"2006","journal-title":"Bioinformatics"},{"key":"2023051609163862300_btab061-B7","doi-asserted-by":"crossref","first-page":"646","DOI":"10.1038\/msb.2013.1","article-title":"Programming biological models in python using PySB","volume":"9","author":"Lopez","year":"2013","journal-title":"Mol. Syst. Biol"},{"key":"2023051609163862300_btab061-B8","doi-asserted-by":"crossref","first-page":"1012","DOI":"10.1016\/j.isci.2019.08.045","article-title":"PyBioNetFit and the biological property specification language","volume":"19","author":"Mitra","year":"2019","journal-title":"IScience"},{"article-title":"Stochastic discrete epidemic modeling of COVID-19 transmission in the province of Shaanxi incorporating public health intervention and case importation","year":"2020","author":"Sanyi","key":"2023051609163862300_btab061-B9"},{"key":"2023051609163862300_btab061-B10","doi-asserted-by":"crossref","first-page":"695","DOI":"10.1093\/bioinformatics\/btx626","article-title":"PyDREAM: high-dimensional parameter inference for biological models in python","volume":"34","author":"Shockley","year":"2018","journal-title":"Bioinformatics"},{"key":"2023051609163862300_btab061-B11","article-title":"Scalable machine learning-assisted model exploration and inference using Sciope","author":"Singh","year":"2020","journal-title":"Bioinformatics"},{"key":"2023051609163862300_btab061-B12","doi-asserted-by":"crossref","DOI":"10.1201\/9781315117195","volume-title":"Handbook of Approximate Bayesian Computation","author":"Sisson","year":"2018"},{"key":"2023051609163862300_btab061-B13","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s12916-020-01628-4","article-title":"Epidemiological models are important tools for guiding COVID-19 interventions","volume":"18","author":"Thompson","year":"2020","journal-title":"BMC Med"},{"year":"2020","key":"2023051609163862300_btab061-B14","article-title":"Coronavirus disease (COVID-19) weekly epidemiological update"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btab061\/36212839\/btab061.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/37\/17\/2787\/50339091\/btab061.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/37\/17\/2787\/50339091\/btab061.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,5,16]],"date-time":"2023-05-16T09:19:48Z","timestamp":1684228788000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/37\/17\/2787\/6123781"}},"subtitle":[],"editor":[{"given":"Teresa","family":"Przytycka","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2021,1,29]]},"references-count":14,"journal-issue":{"issue":"17","published-print":{"date-parts":[[2021,9,9]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btab061","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"type":"print","value":"1367-4803"},{"type":"electronic","value":"1367-4811"}],"subject":[],"published-other":{"date-parts":[[2021,9,1]]},"published":{"date-parts":[[2021,1,29]]}}}