BioModelsapplication/xmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039-biopax3.owlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039-biopax2.owlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039_url.xmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039_urn.xmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039.vcmlhttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039.xpphttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039.scihttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039.pnghttps://www.ebi.ac.uk/biomodels/model/download/MODEL1310110039?filename=MODEL1310110039.mprimaryOK200Camille LaibeNon-curatedL2V4https://www.ebi.ac.uk/biomodels/MODEL131011003923455439falseBioModelsMODEL1109130000 biomodels.dbSBMLModelsThiele2013 Testis cells in seminiferus ducts2013MODEL1310110039Non KineticInes Thiele, Neil Swainston, Ronan Fleming, Andreas Hoppe, Swagatika Sahoo, Maike K Aurich, Hulda Haraldsdottir, Monica L Mo, Ottar Rolfsson, Miranda D Stobbe, Stefan G Thorleifsson, Rasmus Agren, Christian Bölling, Sergio Bordel, Arvind K Chavali, Paul Dobson, Warwick Dunn, Lukas Endler, David Hala, Michael Hucka, Duncan Hull, Daniel Jameson, Neema Jamshidi, Jon J Jonsson, Juty N, Sarah M Keating, Intawat Nookaew, Nicolas Le Novère, Naglis Malys, Alexander Mazein, Jason A Papin, Nathan D Price, Evgeni Selkov, Martin I Sigurdsson, Evangelos Simeonidis, Nikolaus Sonnenschein, Kieran Smallbone, Anatoly Sorokin, Johannes H G M van Beek, Dieter Weichart, Igor Goryanin, Jens Nielsen, Hans V Westerhoff, D B Kell, Pedro Mendes, Bernhard Ø PalssonInes Thiele23455439,
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/.. 5, 31.
Center for Systems Biology, University of Iceland, Reykjavik, Iceland. ines.thiele@gmail.comlaibe@ebi.ac.ukEMBL-EBIMultiple 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/.A community-driven global reconstruction of human metabolism.Thiele Ines I, Swainston Neil N, Fleming Ronan M T RM, Hoppe Andreas A, Sahoo Swagatika S, Aurich Maike K MK, Haraldsdottir Hulda H, Mo Monica L ML, Rolfsson Ottar O, Stobbe Miranda D MD, Thorleifsson Stefan G SG, Agren Rasmus R, Bölling Christian C, Bordel Sergio S, Chavali Arvind K AK, Dobson Paul P, Dunn Warwick B WB, Endler Lukas L, Hala David D, Hucka Michael M, Hull Duncan D, Jameson Daniel D, Jamshidi Neema N, Jonsson Jon J JJ, Juty Nick N, Keating Sarah S, Nookaew Intawat I, Le Novère Nicolas N, Malys Naglis N, Mazein Alexander A, Papin Jason A JA, Price Nathan D ND, Selkov Evgeni E, Sigurdsson Martin I MI, Simeonidis Evangelos E, Sonnenschein Nikolaus N, Smallbone Kieran K, Sorokin Anatoly A, van Beek Johannes H G M JH, Weichart Dieter D, Goryanin Igor I, Nielsen Jens J, Westerhoff Hans V HV, Kell Douglas B DB, Mendes Pedro P, Palsson Bernhard Ø BØfalseThiele2013 - Testis cells in seminiferus ducts
Thiele2013 - Testis cells in seminiferus ducts
The model of testis cells in seminiferus ducts metabolism is derived from the community-driven global reconstruction of human metabolism (version 2.02, MODEL1109130000
).
This model is described in the article:
A community-driven global reconstruction of human metabolism.
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/.
This model is hosted on BioModels Database
and identified by: MODEL1310110039
.
To cite BioModels Database, please use: BioModels Database: An enhanced,
curated and annotated resource for published quantitative kinetic models
.
To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer
to CC0 Public Domain Dedication
for more information.
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