A community-driven global reconstruction of human metabolism

Ines Thiele, Neil Swainston, Ronan M.T. 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 B. Dunn, Lukas Endler, David Hala, Michael HuckaDuncan Hull, Daniel Jameson, Neema Jamshidi, Jon J. Jonsson, Nick Juty, Sarah 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, Douglas B. Kell, Pedro Mendes, Bernhard O. Palsson

Research output: Contribution to journalArticlepeer-review

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 ∼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/.

Original languageEnglish (US)
Pages (from-to)419-425
Number of pages7
JournalNature biotechnology
Volume31
Issue number5
DOIs
StatePublished - May 2013
Externally publishedYes

ASJC Scopus subject areas

  • Biotechnology
  • Bioengineering
  • Applied Microbiology and Biotechnology
  • Molecular Medicine
  • Biomedical Engineering

Fingerprint

Dive into the research topics of 'A community-driven global reconstruction of human metabolism'. Together they form a unique fingerprint.

Cite this