A community-driven global reconstruction of human metabolism

Thiele, Ines and Swainston, Neil and Fleming, Ronan M.T. and Hoppe, Andreas and Sahoo, Swagatika and Aurich, Maike K. and Haraldsdottir, Hulda and Mo, Monica L. and Rolfsson, Ottar and Stobbe, Miranda D. and Thorleifsson, Stefan G. and Agren, Rasmus and Bölling, Christian and Bordel, Sergio and Chavali, Arvind K. and Dobson, Paul D. and Dunn, Warwick B. and Endler, Lukas and Hala, David and Hucka, Michael and Jameson, Daniel and Jamshidi, Neema and Jonsson, Jon J. and Juty, Nick and Keating, Sarah and Nookaew, Intawat and Le Novère, Nicolas and Malys, Naglis and Mazein, Alexander and Papin, Jason A. and Price, Nathan D. and Selkov, Sr., Evgeni and Sigurdsson, Martin I. and Simeonidis, Evangelos and Sonnenschein, Nikolaus and Smallbone, Kieran and Sorokin, Antony and van Beek, Johannes H.G.M. and Weichart, Dieter and Goryanin, Igor and Neilsen, Jens and Westerhoff, Hans V. and Kell, Douglas B, and Mendes, Pedro M. and Palsson, Bernhard Ø. (2013) A community-driven global reconstruction of human metabolism. Nature Biotechnology, 31 (5). pp. 419-425.

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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/.

Item Type: Article
Subjects: MSC 2010, the AMS's Mathematics Subject Classification > 92 Biology and other natural sciences
Depositing User: Dr Kieran Smallbone
Date Deposited: 12 Jul 2015
Last Modified: 20 Oct 2017 14:13
URI: http://eprints.maths.manchester.ac.uk/id/eprint/2336

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