Fundamentals of Systems Analysis and Modeling of Biosystems and Metabolism

Fundamentals of Systems Analysis and Modeling of Biosystems and Metabolism

Indexed in: EBSCO.

An understanding of biological systems at cellular and molecular levels helps researchers to model cellular behavior in different experimental conditions. This, in turn, can lead to insights about ...
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Fundamentals of Modeling of Biosystems

Pp. 81-132 (52)

Kazuyuki Shimizu and Yu Matsuoka

Abstract

The transport phenomena such as mass balance, momentum balance, and heat balance are briefly explained for the basis of modeling, where all the appropriate models must be constructed based on the principles which govern the organisms and their living environment. The model reduction by singular perturbation is explained for the simple enzyme reaction. The basic modeling approaches such as flux balance analysis (FBA), metabolic flux analysis (MFA), kinetic model, and their integration are briefly explained. Unstructure models are explained for the batch, fed-batch, and continuous cultures. For the modeling of Eco-systems, some population dynamic models are explained. As the datadriven modeling, the structure and the algorithm of artificial neural networks (ANNs) are explained together with simple examples. These modeling approaches may cover a variety of modeling approaches to the variety of cell systems.

Keywords:

Flux balance analysis, metabolic flux analysis, kinetic modeling, mass balance, momentum balance, heat balance, unstructured model, cybernetic model, singular perturbation, population dynamics, age model, artificial neural networks (ANNs).

Affiliation:

Institute of Advanced Biosciences Keio University Tsuruoka Yamagata 997-0017 Japan.