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Efficient stochastic simulation of reaction-diffusion processes via direct compilation

dc.contributor.authorLis, Mieszko
dc.contributor.authorArtyomov, Maxim N.
dc.contributor.authorChakraborty, Arup K.
dc.contributor.authorDevadas, Srinivas
dc.date.accessioned2010-11-04T18:32:37Z
dc.date.available2010-11-04T18:32:37Z
dc.date.issued2009-07
dc.date.submitted2009-06
dc.identifier.issn1460-2059
dc.identifier.issn1367-4803
dc.identifier.urihttp://hdl.handle.net/1721.1/59816
dc.description.abstractWe present the Stochastic Simulator Compiler (SSC), a tool for exact stochastic simulations of well-mixed and spatially heterogeneous systems. SSC is the first tool to allow a readable high-level description with spatially heterogeneous simulation algorithms and complex geometries; this permits large systems to be expressed concisely. Meanwhile, direct native-code compilation allows SSC to generate very fast simulations.en_US
dc.description.sponsorshipNational Institutes of Health. (U.S.) (NIH Grant #1PO1/AI071195/01)en_US
dc.language.isoen_US
dc.publisherOxford University Pressen_US
dc.relation.isversionofhttp://dx.doi.org/10.1093/bioinformatics/btp387en_US
dc.rightsAttribution Non-Commercial Licenseen_US
dc.rights.urihttp://creativecommons.org/licenses/ by-nc/2.0/uk/en_US
dc.sourceMIT web domainen_US
dc.titleEfficient stochastic simulation of reaction-diffusion processes via direct compilationen_US
dc.typeArticleen_US
dc.identifier.citationLis, Mieszko et al. “Efficient stochastic simulation of reaction–diffusion processes via direct compilation.” Bioinformatics 25.17 (2009): 2289 -2291.en_US
dc.contributor.departmentMassachusetts Institute of Technology. Computer Science and Artificial Intelligence Laboratoryen_US
dc.contributor.departmentMassachusetts Institute of Technology. Department of Biological Engineeringen_US
dc.contributor.departmentMassachusetts Institute of Technology. Department of Chemical Engineeringen_US
dc.contributor.departmentMassachusetts Institute of Technology. Department of Chemistryen_US
dc.contributor.approverDevadas, Srinivas
dc.contributor.mitauthorLis, Mieszko
dc.contributor.mitauthorArtyomov, Maxim N.
dc.contributor.mitauthorChakraborty, Arup K.
dc.contributor.mitauthorDevadas, Srinivas
dc.relation.journalBioinformaticsen_US
dc.eprint.versionFinal published versionen_US
dc.type.urihttp://purl.org/eprint/type/JournalArticleen_US
eprint.statushttp://purl.org/eprint/status/PeerRevieweden_US
dspace.orderedauthorsLis, M.; Artyomov, M. N.; Devadas, S.; Chakraborty, A. K.en
dc.identifier.orcidhttps://orcid.org/0000-0001-8253-7714
dc.identifier.orcidhttps://orcid.org/0000-0003-1268-9602
mit.licensePUBLISHER_CCen_US
mit.metadata.statusComplete


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