Mardinoglu2013 - Genome-scale metabolic model (HMR version 1.0) - human adipocytes (iAdipocytes1809)

  public model
Short description

This SBML representation of the Homo sapiens adipocyte metabolic network is made available under the Creative Commons Attribution-Share Alike 3.0 Unported Licence (see www.creativecommons.org ).

Format
SBML (L2V3)
Related Publication
  • Integration of clinical data with a genome-scale metabolic model of the human adipocyte.
  • Mardinoglu A, Agren R, Kampf C, Asplund A, Nookaew I, Jacobson P, Walley AJ, Froguel P, Carlsson LM, Uhlen M, Nielsen J
  • Molecular Systems Biology , 0/ 2013 , Volume 9 , pages: 649
  • Department of Chemical and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden.
  • We evaluated the presence/absence of proteins encoded by 14‚ÄČ077 genes in adipocytes obtained from different tissue samples using immunohistochemistry. By combining this with previously published adipocyte-specific proteome data, we identified proteins associated with 7340 genes in human adipocytes. This information was used to reconstruct a comprehensive and functional genome-scale metabolic model of adipocyte metabolism. The resulting metabolic model, iAdipocytes1809, enables mechanistic insights into adipocyte metabolism on a genome-wide level, and can serve as a scaffold for integration of omics data to understand the genotype-phenotype relationship in obese subjects. By integrating human transcriptome and fluxome data, we found an increase in the metabolic activity around androsterone, ganglioside GM2 and degradation products of heparan sulfate and keratan sulfate, and a decrease in mitochondrial metabolic activities in obese subjects compared with lean subjects. Our study hereby shows a path to identify new therapeutic targets for treating obesity through combination of high throughput patient data and metabolic modeling.
Contributors
Adil Mardinoglu

Metadata information

is
BioModels Database MODEL1402200001
Taxonomy Homo sapiens
isVersionOf
occursIn
Brenda Tissue Ontology adipose tissue

Curation status
Non-curated

Original model(s)
Human Metabolic Reaction Database

Tags
Name Description Size Actions

Model files

MODEL1402200001_url.xml SBML L2V3 representation of Mardinoglu2013 - Genome-scale metabolic model (HMR version 1.0) - human adipocytes (iAdipocytes1809) 18.52 MB Preview | Download

Additional files

MODEL1402200001.svg Auto-generated Reaction graph (SVG) 558.00 bytes Preview | Download
MODEL1402200001-biopax3.owl Auto-generated BioPAX (Level 3) 32.28 MB Preview | Download
MODEL1402200001_urn.xml Auto-generated SBML file with URNs 19.47 MB Preview | Download
MODEL1402200001.png Auto-generated Reaction graph (PNG) 5.07 KB Preview | Download
MODEL1402200001-biopax2.owl Auto-generated BioPAX (Level 2) 19.42 MB Preview | Download
MODEL1402200001.sci Auto-generated Scilab file 167.00 bytes Preview | Download
MODEL1402200001.pdf Auto-generated PDF file 36.81 KB Preview | Download

  • Model originally submitted by : Adil Mardinoglu
  • Submitted: Feb 20, 2014 10:32:39 AM
  • Last Modified: Feb 21, 2014 10:52:02 AM
Revisions
  • Version: 2 public model Download this version
    • Submitted on: Feb 21, 2014 10:52:02 AM
    • Submitted by: Adil Mardinoglu
    • With comment: Current version of Mardinoglu2013 - Genome-scale metabolic model (HMR version 1.0) - human adipocytes (iAdipocytes1809)
  • Version: 1 public model Download this version
    • Submitted on: Feb 20, 2014 10:32:39 AM
    • Submitted by: Adil Mardinoglu
    • With comment: Original import of MODEL1402200001.xml.origin