dc.contributor.author | Verwoerd, Wynand S. | en |
dc.date.accessioned | 2011-06-17T02:47:32Z | |
dc.date.issued | 2007-12 | en |
dc.identifier.isbn | 978-0-9758400-4-7 | en |
dc.identifier.uri | https://hdl.handle.net/10182/3637 | |
dc.description.abstract | Constraint-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.extent | 2013-2019 | en |
dc.language.iso | en | en |
dc.publisher | Modelling and Simulation Society of Australia and New Zealand Inc. | en |
dc.relation | The original publication is available from - Modelling and Simulation Society of Australia and New Zealand Inc. | en |
dc.rights | Copyright © 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.source | Proceedings of the International Congress on Modelling and Simulation | en |
dc.subject | flavonoids | en |
dc.subject | constraints | en |
dc.subject | biochemical pathway | en |
dc.subject | subnet | en |
dc.subject | metabolic network | en |
dc.subject | flavonoid | en |
dc.subject | constraint | en |
dc.title | Identifying coherent subnetworks in genome scale metabolic networks | en |
dc.type | Conference Contribution - Published | |
lu.contributor.unit | Lincoln University | en |
lu.contributor.unit | Faculty of Agriculture and Life Sciences | en |
lu.contributor.unit | Department of Wine, Food and Molecular Biosciences | en |
pubs.finish-date | 2007-12-13 | en |
pubs.notes | Conference 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/QE18 | |
pubs.publication-status | Published | en |
pubs.start-date | 2007-12-10 | en |
lu.identifier.orcid | 0000-0001-8744-1578 | |
lu.subtype | Conference Paper | en |