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dc.contributor.authorVerwoerd, Wynand S.en
dc.date.accessioned2011-06-17T02:47:32Z
dc.date.issued2007-12en
dc.identifier.isbn978-0-9758400-4-7en
dc.identifier.urihttps://hdl.handle.net/10182/3637
dc.description.abstractConstraint-based methods to analyse metabolic networks require the classification of metabolites into external compounds that are exchanged with the system environment, and internal ones that form intermediate steps on the metabolic pathways and which are therefore subject to stoichiometry constraints in the steady state. For eukaryotic cells it is not practical to analyse the complete cellular network, and so the subnetwork that describes the specific phenomena under study needs to be extracted. This study focuses on flavonoid production in the model plant Arabidopsis Thaliana. Software was developed to extract the full Arabidopsis metabolic network from the AraCyc database, in a format required by standard network analysis packages. Considerable processing is also required to reconcile information about reaction directions from different database tables and to classify metabolites as internal or external to the subnetwork. The paper outlines the strategies implemented in the software to address these issues.en
dc.format.extent2013-2019en
dc.language.isoenen
dc.publisherModelling and Simulation Society of Australia and New Zealand Inc.en
dc.relationThe original publication is available from - Modelling and Simulation Society of Australia and New Zealand Inc.en
dc.rightsCopyright © The Authors. The responsibility for the contents of this paper rests upon the authors and not on the Modelling and Simulation Society of Australia and New Zealand Inc.en
dc.sourceProceedings of the International Congress on Modelling and Simulationen
dc.subjectflavonoidsen
dc.subjectconstraintsen
dc.subjectbiochemical pathwayen
dc.subjectsubneten
dc.subjectmetabolic networken
dc.subjectflavonoiden
dc.subjectconstrainten
dc.titleIdentifying coherent subnetworks in genome scale metabolic networksen
dc.typeConference Contribution - Published
lu.contributor.unitLincoln Universityen
lu.contributor.unitFaculty of Agriculture and Life Sciencesen
lu.contributor.unitDepartment of Wine, Food and Molecular Biosciencesen
lu.contributor.uniten
lu.contributor.uniten
pubs.finish-date2007-12-13en
pubs.notesConference paper presented at the MODSIM07, International Congress on Modelling and Simulation, held December 2007, University of Canterbury, New Zealand.en
pubs.organisational-group/LU
pubs.organisational-group/LU/Agriculture and Life Sciences
pubs.organisational-group/LU/Agriculture and Life Sciences/WFMB
pubs.organisational-group/LU/Research Management Office
pubs.organisational-group/LU/Research Management Office/2018 PBRF Staff group
pubs.publication-statusPublisheden
pubs.start-date2007-12-10en
lu.identifier.orcid0000-0001-8744-1578
lu.subtypeConference Paperen


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