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Estimation of metabolic pathway systems from different data sources

Estimation of metabolic pathway systems from different data sources

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Parameter estimation is the main bottleneck of metabolic pathway modelling. It may be addressed from the bottom up, using information on metabolites, enzymes and modulators, or from the top down, using metabolic time series data, which have become more prevalent in recent years. The authors propose here that it is useful to combine the two strategies and to complement time-series analysis with kinetic information. In particular, the authors investigate how the recent method of dynamic flux estimation (DFE) may be supplemented with other types of estimation. Using the glycolytic pathway in Lactococcus lactis as an illustration example, the authors demonstrate some strategies of such supplementation.

Inspec keywords: molecular biophysics; parameter estimation; biochemistry; time series

Other keywords: modulators; enzymes; parameter estimation; kinetic information; dynamic flux estimation; time-series analysis; Lactococcus lactis; metabolic pathway systems; glycolytic pathway

Subjects: Physical chemistry of biomolecular solutions and condensed states; Probability theory, stochastic processes, and statistics; Model reactions in molecular biophysics

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