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Thiele2013 - Epididymis glandular cells

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Thiele2013 - Epididymis glandular cells

The model of epididymis glandular cells metabolism is derived from the community-driven global reconstruction of human metabolism (version 2.02, MODEL1109130000 ).

This model is described in the article:

Thiele I, et al .
Nature Biotechnology

Abstract:

Multiple models of human metabolism have been reconstructed, but each represents only a subset of our knowledge. Here we describe Recon 2, a community-driven, consensus 'metabolic reconstruction', which is the most comprehensive representation of human metabolism that is applicable to computational modeling. Compared with its predecessors, the reconstruction has improved topological and functional features, including ~2x more reactions and ~1.7x more unique metabolites. Using Recon 2 we predicted changes in metabolite biomarkers for 49 inborn errors of metabolism with 77% accuracy when compared to experimental data. Mapping metabolomic data and drug information onto Recon 2 demonstrates its potential for integrating and analyzing diverse data types. Using protein expression data, we automatically generated a compendium of 65 cell type-specific models, providing a basis for manual curation or investigation of cell-specific metabolic properties. Recon 2 will facilitate many future biomedical studies and is freely available at http://humanmetabolism.org/.

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Format
SBML (L2V4)
Related Publication
  • A community-driven global reconstruction of human metabolism.
  • Thiele I, Swainston N, Fleming RM, Hoppe A, Sahoo S, Aurich MK, Haraldsdottir H, Mo ML, Rolfsson O, Stobbe MD, Thorleifsson SG, Agren R, Bölling C, Bordel S, Chavali AK, Dobson P, Dunn WB, Endler L, Hala D, Hucka M, Hull D, Jameson D, Jamshidi N, Jonsson JJ, Juty N, Keating SM, Nookaew I, Le Novère N, Malys N, Mazein A, Papin JA, Price ND, Selkov E Sr, Sigurdsson MI, Simeonidis E, Sonnenschein N, Smallbone K, Sorokin A, van Beek JH, Weichart D, Goryanin I, Nielsen J, Westerhoff HV, Kell DB, Mendes P, Palsson BØ
  • Nature biotechnology , 5/ 2013 , Volume 31 , pages: 419-425
  • Center for Systems Biology, University of Iceland, Reykjavik, Iceland. ines.thiele@gmail.com
  • Multiple models of human metabolism have been reconstructed, but each represents only a subset of our knowledge. Here we describe Recon 2, a community-driven, consensus 'metabolic reconstruction', which is the most comprehensive representation of human metabolism that is applicable to computational modeling. Compared with its predecessors, the reconstruction has improved topological and functional features, including ∼2× more reactions and ∼1.7× more unique metabolites. Using Recon 2 we predicted changes in metabolite biomarkers for 49 inborn errors of metabolism with 77% accuracy when compared to experimental data. Mapping metabolomic data and drug information onto Recon 2 demonstrates its potential for integrating and analyzing diverse data types. Using protein expression data, we automatically generated a compendium of 65 cell type-specific models, providing a basis for manual curation or investigation of cell-specific metabolic properties. Recon 2 will facilitate many future biomedical studies and is freely available at http://humanmetabolism.org/.
Contributors
Camille Laibe

Metadata information


Curation status
Non-curated

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Model files

MODEL1310110054.xml.origin SBML L2V4 representation of Thiele2013 - Epididymis glandular cells 11.79 MB Preview | Download

  • Model originally submitted by : Camille Laibe
  • Submitted: Oct 11, 2013 7:58:29 PM
  • Last Modified: Oct 14, 2013 10:01:08 PM
Revisions
  • Version: 2 public model Download this version
    • Submitted on: Oct 14, 2013 10:01:08 PM
    • Submitted by: Camille Laibe
    • With comment: Current version of Thiele2013 - Epididymis glandular cells
  • Version: 1 public model Download this version
    • Submitted on: Oct 11, 2013 7:58:29 PM
    • Submitted by: Camille Laibe
    • With comment: Original import of Thiele2013 - Epididymis glandular cells