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However, for large and comprehensive models, the computational cost of simulating or calibrating can be limiting. AMICI is a modular toolbox implemented in C++\/Python\/MATLAB that provides efficient simulation and sensitivity analysis routines tailored for scalable, gradient-based parameter estimation and uncertainty quantification.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availabilityand implementation<\/jats:title>\n                  <jats:p>AMICI is published under the permissive BSD-3-Clause license with source code publicly available on https:\/\/github.com\/AMICI-dev\/AMICI. Citeable releases are archived on Zenodo.<\/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\/btab227","type":"journal-article","created":{"date-parts":[[2021,4,1]],"date-time":"2021-04-01T19:29:42Z","timestamp":1617305382000},"page":"3676-3677","source":"Crossref","is-referenced-by-count":77,"title":["AMICI: high-performance sensitivity analysis for large ordinary differential equation models"],"prefix":"10.1093","volume":"37","author":[{"given":"Fabian","family":"Fr\u00f6hlich","sequence":"first","affiliation":[{"name":"Department of Systems Biology, Harvard Medical School , Boston, MA 02115, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9963-6057","authenticated-orcid":false,"given":"Daniel","family":"Weindl","sequence":"additional","affiliation":[{"name":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yannik","family":"Sch\u00e4lte","sequence":"additional","affiliation":[{"name":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany"},{"name":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dilan","family":"Pathirana","sequence":"additional","affiliation":[{"name":"Faculty of Mathematics and Natural Sciences, University of Bonn , Bonn 53113, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"\u0141ukasz","family":"Paszkowski","sequence":"additional","affiliation":[{"name":"Simula Research , Lysaker 1325, Norway"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Glenn Terje","family":"Lines","sequence":"additional","affiliation":[{"name":"Simula Research , Lysaker 1325, Norway"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paul","family":"Stapor","sequence":"additional","affiliation":[{"name":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany"},{"name":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4935-3312","authenticated-orcid":false,"given":"Jan","family":"Hasenauer","sequence":"additional","affiliation":[{"name":"Institute of Computational Biology, Helmholtz Zentrum M\u00fcnchen \u2013 German Research Center for Environmental Health , Neuherberg 85764, Germany"},{"name":"Department of Mathematics, Technische Universit\u00e4t M\u00fcnchen , Garching 85748, Germany"},{"name":"Faculty of Mathematics and Natural Sciences, University of Bonn , Bonn 53113, Germany"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2021,4,2]]},"reference":[{"key":"2023051608571367200_btab227-B1","doi-asserted-by":"crossref","first-page":"880","DOI":"10.1093\/bioinformatics\/btn051","article-title":"LibSBML: an API library for SBML","volume":"24","author":"Bornstein","year":"2008","journal-title":"Bioinformatics"},{"key":"2023051608571367200_btab227-B2","doi-asserted-by":"crossref","first-page":"i583","DOI":"10.1093\/bioinformatics\/bty272","article-title":"The Kappa platform for rule-based modeling","volume":"34","author":"Boutillier","year":"2018","journal-title":"Bioinformatics"},{"key":"2023051608571367200_btab227-B3","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1145\/1824801.1824814","article-title":"Algorithm 907: KLU, a direct sparse solver for circuit simulation problems","volume":"37","author":"Davis","year":"2010","journal-title":"ACM Trans. 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