A method for estimating metabolic fluxes from incomplete isotopomer information

Juho Rousu, Ari Rantanen, Hannu Maaheimo, Esa Pitkänen, Katja Saarela, Esko Ukkonen

    Research output: Chapter in Book/Report/Conference proceedingConference article in proceedingsScientificpeer-review

    9 Citations (Scopus)

    Abstract

    Metabolic flux estimation-the problem of finding out the rates of reactions in metabolic pathways-is an important problem area in the study of metabolism. The most accurate technique for this task today is the use of isotopic tracer experiments, where a mixture of differently isotope-labeled substrates is fed to a cell culture and the propagation of the labels is observed from the products and intermediate metabolites, where possible. We present a generic methodology for solving the fluxes of a metabolic network in a steady state. The method differs from most previous approaches by not making prior assumptions about the topology of the metabolic network. Also, only very mild assumptions are made about the available measurement data, for example, both positional enrichment and mass isotopomer data can be used.
    Original languageEnglish
    Title of host publicationComputational Methods in Systems Biology
    PublisherSpringer
    Pages88-103
    VolumePart II
    ISBN (Electronic)978-3-540-36481-8
    ISBN (Print)978-3-540-00605-3
    DOIs
    Publication statusPublished - 2003
    MoE publication typeA4 Article in a conference publication
    Event1st International Workshop on Computational Methods in Systems Biology, CMSB 2003 - Rovereto, Italy
    Duration: 24 Feb 200326 Feb 2003

    Publication series

    SeriesLecture Notes in Computer Science
    Volume2602
    ISSN0302-9743

    Conference

    Conference1st International Workshop on Computational Methods in Systems Biology, CMSB 2003
    Country/TerritoryItaly
    CityRovereto
    Period24/02/0326/02/03

    Keywords

    • Mass-spectrometry
    • Networks

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