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A critical review on modelling formalisms and simulation tools in computational biosystems

dc.contributor.authorMachado, Daniel
dc.contributor.authorCosta, Rafael S.
dc.contributor.authorRocha, Miguel
dc.contributor.authorRocha, Isabel
dc.contributor.authorTidor, Bruce
dc.contributor.authorFerreira, Eugenio C.
dc.date.accessioned2012-10-11T20:17:28Z
dc.date.available2012-10-11T20:17:28Z
dc.date.issued2009-06
dc.date.submitted2009-06
dc.identifier.isbn978-3-642-02480-1
dc.identifier.issn0302-9743
dc.identifier.issn1611-3349
dc.identifier.urihttp://hdl.handle.net/1721.1/73902
dc.description10th International Work-Conference on Artificial Neural Networks, IWANN 2009 Workshops, Salamanca, Spain, June 10-12, 2009. Proceedings, Part IIen_US
dc.description.abstractIntegration of different kinds of biological processes is an ultimate goal for whole-cell modelling. We briefly review modelling formalisms that have been used in Systems Biology and identify the criteria that must be addressed by an integrating framework capable of modelling, analysing and simulating different biological networks. Aware that no formalism can fit all purposes we realize Petri nets as a suitable model for Metabolic Engineering and take a deeper perspective on the role of this formalism as an integrating framework for regulatory and metabolic networks.en_US
dc.description.sponsorshipFundação para a Ciência e a Tecnologia (PhD grant SFRH/BD/35215/2007)en_US
dc.description.sponsorshipMIT-Portugal Programen_US
dc.language.isoen_US
dc.publisherSpringer Berlin / Heidelbergen_US
dc.relation.isversionofhttp://dx.doi.org/10.1007/978-3-642-02481-8_161en_US
dc.rightsCreative Commons Attribution-Noncommercial-Share Alike 3.0en_US
dc.rights.urihttp://creativecommons.org/licenses/by-nc-sa/3.0/en_US
dc.sourceOther Repositoryen_US
dc.titleA critical review on modelling formalisms and simulation tools in computational biosystemsen_US
dc.typeArticleen_US
dc.identifier.citationMachado, Daniel et al. “A Critical Review on Modelling Formalisms and Simulation Tools in Computational Biosystems.” Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Living. Ed. Sigeru Omatu et al. LNCS Vol. 5518. Berlin, Heidelberg: Springer Berlin Heidelberg, 2009. 1063–1070.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.mitauthorTidor, Bruce
dc.relation.journalDistributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Livingen_US
dc.eprint.versionAuthor's final manuscripten_US
dc.type.urihttp://purl.org/eprint/type/ConferencePaperen_US
dspace.orderedauthorsMachado, Daniel; Costa, Rafael S.; Rocha, Miguel; Rocha, Isabel; Tidor, Bruce; Ferreira, Eugénio C.en
dc.identifier.orcidhttps://orcid.org/0000-0002-3320-3969
mit.licenseOPEN_ACCESS_POLICYen_US
mit.metadata.statusComplete


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