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Constraining the Flux Space Using Thermodynamics and Integration of Metabolomics Data

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Metabolic Flux Analysis

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1191))

Abstract

Flux balance analysis of stoichiometric metabolic models has become one of the most common methods for estimating intracellular fluxes. However most of these networks are underdetermined and can have multiple alternate optimal flux distributions. Thermodynamic constraints can reduce the solution space significantly and at the same time provide a platform for the integration of metabolomics data. Here we go through the procedure to incorporate thermodynamic constraints and perform thermodynamic analysis of metabolic networks.

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Acknowledgement

K.C.S. was supported by the Swiss National Science Foundation. V.H. is supported by funding from Ecole Polytechnique Fédérale de Lausanne (EPFL) and NEMO for Bioethanol, EU FP7 Programme. Support has also been provided from SystemsX.ch, The Swiss Initiative in Systems Biology, through the project MetaNetX.

Author information

Authors and Affiliations

  1. École Polytechnique Fédérale de Lausanne (EFPL), Lausanne, Switzerland

    Keng Cher Soh

  2. Laboratory of Computational Systems Biotechnology, École Polytechnique Fédérale de Lausanne (EFPL), EPFL SB ISIC LCSB, CH H4 625 (Bâtiment CH), Station 6, CH-1015, Lausanne, Switzerland

    Vassily Hatzimanikatis

Authors
  1. Keng Cher Soh
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  2. Vassily Hatzimanikatis
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Corresponding author

Correspondence to Vassily Hatzimanikatis .

Editor information

Editors and Affiliations

  1. Centre for Microbial Electrosynthesis (CEMES), Advanced Water Management Centre, University of Queensland, St. Lucia, Brisbane, Queensland, Australia

    Jens O. Krömer

  2. AIBN, University of Queensland, St. Lucia, Brisbane, Queensland, Australia

    Lars K. Nielsen

  3. Biology Department, RWTH Aachen University, Aachen, Germany

    Lars M. Blank

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Soh, K.C., Hatzimanikatis, V. (2014). Constraining the Flux Space Using Thermodynamics and Integration of Metabolomics Data. In: Krömer, J., Nielsen, L., Blank, L. (eds) Metabolic Flux Analysis. Methods in Molecular Biology, vol 1191. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-1170-7_3

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  • DOI: https://doi.org/10.1007/978-1-4939-1170-7_3

  • Published:

  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-1169-1

  • Online ISBN: 978-1-4939-1170-7

  • eBook Packages: Springer Protocols

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