AI Article Synopsis
- The paper introduces a new modeling method for biochemical reactions using finite state automata instead of traditional differential equations.
- It explores the algebraic structure of chemical reactions through automatically created coordinate systems and provides a summary of the relevant mathematical theory.
- The authors illustrate their approach using the Krebs citric acid cycle as a practical example and discuss techniques for manipulating existing biochemical models.
Article Abstract
We propose a modeling and analysis method for biochemical reactions based on finite state automata. This is a completely different approach compared to traditional modeling of reactions by differential equations. Our method aims to explore the algebraic structure behind chemical reactions using automatically generated coordinate systems. In this paper we briefly summarize the underlying mathematical theory (the algebraic hierarchical decomposition theory of finite state automata) and describe how such automata can be derived from the description of chemical reaction networks. We also outline techniques for the flexible manipulation of existing models. As a real-world example we use the Krebs citric acid cycle.
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| http://dx.doi.org/10.1016/j.biosystems.2008.05.018 | DOI Listing |
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