Biochemical pathways simulation
Andrea Cangiani
TL;DR
This paper reviews deterministic simulation methods for biochemical pathways based on mass action kinetics and introduces MATLAB tools for easy network simulation, supporting research in biochemical network analysis.
Contribution
It provides a review and practical MATLAB implementation for simulating biochemical pathways, facilitating research in systems biology.
Findings
MATLAB code enables easy simulation of biochemical networks
Deterministic methods based on mass action law are reviewed
Supports research in biochemical systems analysis
Abstract
In this short note we review deterministic simulation of biochemical pathways, i.e. networks of biochemical reactions obeying the law of mass action. It is meant as a basis for the MATLAB code, written by the author, which permits easy input and simulation of general biochemical networks. This work was carried out for the European Project `CardioWorkBench'.
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Taxonomy
TopicsGene Regulatory Network Analysis · Microbial Metabolic Engineering and Bioproduction · Bioinformatics and Genomic Networks