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The Edinburgh human metabolic network reconstruction and its functional analysis

Hongwu Ma, Anatoly Sorokin, Alexander Mazein, Alex Selkov, Evgeni Selkov, Oleg Demin, Igor Goryanin
Hongwu Ma
Computational Systems Biology, School of Informatics, The University of Edinburgh, Edinburgh, UK
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Anatoly Sorokin
Computational Systems Biology, School of Informatics, The University of Edinburgh, Edinburgh, UK
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Alexander Mazein
Computational Systems Biology, School of Informatics, The University of Edinburgh, Edinburgh, UK
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Alex Selkov
EMP Project Inc., Naperville, IL, USA
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Evgeni Selkov
EMP Project Inc., Naperville, IL, USA
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Oleg Demin
Institute for Systems Biology SPb, Leninskie Gory, Moscow State University, Moscow, Russia
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Igor Goryanin
Computational Systems Biology, School of Informatics, The University of Edinburgh, Edinburgh, UK
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Author Affiliations

  1. Hongwu Ma1,
  2. Anatoly Sorokin1,
  3. Alexander Mazein1,
  4. Alex Selkov2,
  5. Evgeni Selkov2,
  6. Oleg Demin3 and
  7. Igor Goryanin*,1
  1. 1 Computational Systems Biology, School of Informatics, The University of Edinburgh, Edinburgh, UK
  2. 2 EMP Project Inc., Naperville, IL, USA
  3. 3 Institute for Systems Biology SPb, Leninskie Gory, Moscow State University, Moscow, Russia
  1. ↵*Corresponding author. Computational Systems Biology, School of Informatics, The University of Edinburgh, Darwin Building, Kings Buildings, Mayfield Road, Edinburgh EH9 3JB, UK. Tel.: +44 131 651 3837; Fax: +44 131 650 6513; E-mail: Goryanin@inf.ed.ac.uk
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DOI 10.1038/msb4100177 | Published online 18.09.2007
Molecular Systems Biology (2007) 3, 135
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Abstract

A better understanding of human metabolism and its relationship with diseases is an important task in human systems biology studies. In this paper, we present a high‐quality human metabolic network manually reconstructed by integrating genome annotation information from different databases and metabolic reaction information from literature. The network contains nearly 3000 metabolic reactions, which were reorganized into about 70 human‐specific metabolic pathways according to their functional relationships. By analysis of the functional connectivity of the metabolites in the network, the bow‐tie structure, which was found previously by structure analysis, is reconfirmed. Furthermore, the distribution of the disease related genes in the network suggests that the IN (substrates) subset of the bow‐tie structure has more flexibility than other parts.

  • bow‐tie
  • human
  • metabolic network
  • pathway

Mol Syst Biol. 3: 135

  • Received February 5, 2007.
  • Accepted July 30, 2007.
  • Copyright © 2007 EMBO and Nature Publishing Group

This is an open access article under the terms of the Creative Commons Attribution‐NonCommercial‐NoDerivs License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made.

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Volume 3, Issue 1
01 January 2007
Molecular Systems Biology: 3 (1)
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Article

  • Article
    • Abstract
    • Introduction
    • Reconstruction of the global network
    • Pathway organization of the human metabolic network
    • Functional analysis of the human metabolic network and the bow‐tie structure
    • Supplementary Information
    • References
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