Research article
Systematic assignment of thermodynamic constraints in metabolic network models
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* Corresponding author: Matthias Heinemann heinemann@imsb.biol.ethz.ch
1 Institute of Molecular Systems Biology, ETH Zurich, Wolfgang-Pauli-Str. 16, 8093 Zurich, Switzerland
2 Bioprocess Laboratory, Institute of Process Engineering, ETH Zurich, Universitätsstr. 6, 8092 Zurich, Switzerland
BMC Bioinformatics 2006, 7:512 doi:10.1186/1471-2105-7-512
Published: 23 November 2006Additional files
Additional file 1:
Lists of assigned reaction directions. This Excel file contains three sheets with (i) the list of reactions that were assigned by the standard assignment procedure, (ii) the list of reactions in case the final electron acceptors are additionally considered, and (iii) the lists of reactions that were assigned manually to obtain a thermodynamically reasonable model. In the first two sheets, we also report in which assignment step a direction was defined by our algorithm.
Format: XLS Size: 278KB Download file
This file can be viewed with: Microsoft Excel Viewer
Additional file 2:
List of applied Gibbs energies of formation. This Excel file contains the list of the model's metabolites and – if available – the respective transformed Gibbs energy of formation at a pH of 7.6 and an ionic strength of 0.15 M.
Format: XLS Size: 51KB Download file
This file can be viewed with: Microsoft Excel Viewer