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Theor Biol Med Model. 2006 Jul 17;3:24.

A simplified method for power-law modelling of metabolic pathways from time-course data and steady-state flux profiles.

Author information

1
Institute of Advanced Bioscience, Keio University, Fujisawa, 252-8520, Japan. tomoyan@sfc.keio.ac.jp

Abstract

BACKGROUND:

In order to improve understanding of metabolic systems there have been attempts to construct S-system models from time courses. Conventionally, non-linear curve-fitting algorithms have been used for modelling, because of the non-linear properties of parameter estimation from time series. However, the huge iterative calculations required have hindered the development of large-scale metabolic pathway models. To solve this problem we propose a novel method involving power-law modelling of metabolic pathways from the Jacobian of the targeted system and the steady-state flux profiles by linearization of S-systems.

RESULTS:

The results of two case studies modelling a straight and a branched pathway, respectively, showed that our method reduced the number of unknown parameters needing to be estimated. The time-courses simulated by conventional kinetic models and those described by our method behaved similarly under a wide range of perturbations of metabolite concentrations.

CONCLUSION:

The proposed method reduces calculation complexity and facilitates the construction of large-scale S-system models of metabolic pathways, realizing a practical application of reverse engineering of dynamic simulation models from the Jacobian of the targeted system and steady-state flux profiles.

PMID:
16846504
PMCID:
PMC1550393
DOI:
10.1186/1742-4682-3-24
[Indexed for MEDLINE]
Free PMC Article

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