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. 2013 Aug;9(4):757-764.
doi: 10.1007/s11306-013-0564-3. Epub 2013 Jul 12.

An Analysis of a 'Community-Driven' Reconstruction of the Human Metabolic Network

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Free PMC article

An Analysis of a 'Community-Driven' Reconstruction of the Human Metabolic Network

Neil Swainston et al. Metabolomics. .
Free PMC article

Abstract

Following a strategy similar to that used in baker's yeast (Herrgård et al. Nat Biotechnol 26:1155-1160, 2008). A consensus yeast metabolic network obtained from a community approach to systems biology (Herrgård et al. 2008; Dobson et al. BMC Syst Biol 4:145, 2010). Further developments towards a genome-scale metabolic model of yeast (Dobson et al. 2010; Heavner et al. BMC Syst Biol 6:55, 2012). Yeast 5-an expanded reconstruction of the Saccharomyces cerevisiae metabolic network (Heavner et al. 2012) and in Salmonella typhimurium (Thiele et al. BMC Syst Biol 5:8, 2011). A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonellatyphimurium LT2 (Thiele et al. 2011), a recent paper (Thiele et al. Nat Biotechnol 31:419-425, 2013). A community-driven global reconstruction of human metabolism (Thiele et al. 2013) described a much improved 'community consensus' reconstruction of the human metabolic network, called Recon 2, and the authors (that include the present ones) have made it freely available via a database at http://humanmetabolism.org/ and in SBML format at Biomodels (http://identifiers.org/biomodels.db/MODEL1109130000). This short analysis summarises the main findings, and suggests some approaches that will be able to exploit the availability of this model to advantage.

Keywords: Metabolic networks; Metabolism; Modelling; Networks; Systems biology.

Figures

Fig. 1
Fig. 1
A summary of some of the intellectual areas in which we can create and exploit the contents of systems biology models as encoded in SBML
Fig. 2
Fig. 2
An assessment of the distribution of molecular masses of the metabolites in Recon 2

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