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Computational analysis of metabolic networks

  • Chapter
Modern Genome Annotation

Abstract

The metabolism of a species results from the joint operation of a large network of biochemical reactions, almost all of which are catalyzed by enzymes encoded in the genome of that species. Metabolic databases such as KEGG (Ogata et al. 1998; Kanehisa et al. 2006) or MetaCyc (Karp et al. 1996; Caspi et al. 2007) contain information about thousands of such reactions together with the compounds they involve. For instance, the KEGG database (as of January 2007) contains 6,580 reactions, and 5355 compounds, linked together by 13,490 substrate-to-reaction and 13,956 reaction-to-product relationships. In total, the KEGG database thus contains 18,515 entities (the metabolites and reactions), and 27,446 links (the substrate-to-reation and reaction-to-product-relationships). Furthermore, genes whose products are known to encode enzymes are linked to the corresponding reactions.

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Author information

Authors and Affiliations

  1. CEA - Institut de Genomique - Genoscope, Evry, France

    P.-Y. Bourguignon & V. Schächter

  2. Laboratory of Genome and Network Bioinformatics, Université Libre de Bruxelles, Bruxelles, Belgique

    J. van Helden

  3. Centre for Bioinformatics, King’s College, London, UK

    C. Ouzounis

Authors
  1. P.-Y. Bourguignon
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  2. J. van Helden
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  3. C. Ouzounis
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  4. V. Schächter
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Corresponding author

Correspondence to V. Schächter .

Editor information

Editors and Affiliations

  1. Wissenschaftszentrum Weihenstephan, TU München, Freising, Germany

    Dmitrij Frishman

  2. Structural and Computational Programme, Spanish National Cancer Research Centre, Madrid, Spain

    Alfonso Valencia

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Bourguignon, PY., van Helden, J., Ouzounis, C., Schächter, V. (2008). Computational analysis of metabolic networks. In: Frishman, D., Valencia, A. (eds) Modern Genome Annotation. Springer, Vienna. https://doi.org/10.1007/978-3-211-75123-7_16

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