Koch2005 - Sucrose breakdown pathway - Petri net

  public model
Short description
Format
SBML (L3V1)
Related Publication
  • Application of Petri net theory for modelling and validation of the sucrose breakdown pathway in the potato tuber.
  • Koch I, Junker BH, Heiner M
  • Bioinformatics (Oxford, England) , 4/ 2005 , Volume 21 , pages: 1219-1226
  • Department of Bioinformatics, Technical University of Applied Sciences Berlin, Seestrasse 64, Berlin, 13347, Germany. Ina.Koch@tfh-berlin.de
  • MOTIVATION: Because of the complexity of metabolic networks and their regulation, formal modelling is a useful method to improve the understanding of these systems. An essential step in network modelling is to validate the network model. Petri net theory provides algorithms and methods, which can be applied directly to metabolic network modelling and analysis in order to validate the model. The metabolism between sucrose and starch in the potato tuber is of great research interest. Even if the metabolism is one of the best studied in sink organs, it is not yet fully understood. RESULTS: We provide an approach for model validation of metabolic networks using Petri net theory, which we demonstrate for the sucrose breakdown pathway in the potato tuber. We start with hierarchical modelling of the metabolic network as a Petri net and continue with the analysis of qualitative properties of the network. The results characterize the net structure and give insights into the complex net behaviour.
Contributors
Rahuman Sheriff, Jens Einloft

Metadata information

is
BioModels Database MODEL1308080002
isDescribedBy
PubMed 15546934
hasTaxon
isVersionOf
Gene Ontology starch metabolic process

Curation status
Non-curated

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Name Description Size Actions

Model files

MODEL1308080002_url.xml SBML L3V1 representation of Koch2005 - Sucrose breakdown pathway - Petri net 41.16 KB Preview | Download

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MODEL1308080002.png Auto-generated Reaction graph (PNG) 355.33 KB Preview | Download
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MODEL1308080002-biopax3.owl Auto-generated BioPAX (Level 3) 73.75 KB Preview | Download
MODEL1308080002-biopax2.owl Auto-generated BioPAX (Level 2) 45.74 KB Preview | Download
MODEL1308080002.m Auto-generated Octave file 755.00 bytes Preview | Download
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MODEL1308080002_urn.xml Auto-generated SBML file with URNs 44.28 KB Preview | Download
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  • Model originally submitted by : Jens Einloft
  • Submitted: Aug 8, 2013 4:53:07 PM
  • Last Modified: May 15, 2019 5:57:22 PM
Revisions
  • Version: 5 public model Download this version
    • Submitted on: May 15, 2019 5:57:22 PM
    • Submitted by: Rahuman Sheriff
    • With comment: Edited model metadata online.
  • Version: 2 public model Download this version
    • Submitted on: Sep 10, 2013 4:21:22 PM
    • Submitted by: Jens Einloft
    • With comment: Current version of Koch2005 - sucrose breakdown pathway - petri net
  • Version: 1 public model Download this version
    • Submitted on: Aug 8, 2013 4:53:07 PM
    • Submitted by: Jens Einloft
    • With comment: Original import of Sucrose breakdown pathway in the potato tuber