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APPLICATION OF IMPULSIVE DETERMINISTIC SIMULATION OF BIOCHEMICAL NETWORKS VIA SIMULATION TOOLS
GOKCE TUNCER,VILDA PURUTCUOGLU 장전수학회 2017 Proceedings of the Jangjeon mathematical society Vol.20 No.1
In order to understand the possible behaviour of biochemi- cal networks, deterministic and stochastic simulation methods have been developed. However in some cases, these methods should be broaden. For example, if the biochemical system is subjected to the unexpected effects causing abrupt changes in the network, the ordinary simulation algorithms cannot capture these impulsive expressions. In this study, we select the simulations tools, specifically, COPASI and Systems Biology Toolbox for MATLAB among alternatives that en- able us to represent the impulsive changes in the system via impulsive or adaptive deterministic simulation algorithms. Accordingly, we com- pare these tools by applying the two major impulsive scenarios, namely, impulses for fixed times and fixed states, based on their accuracies and computational demands. We evaluate our results for small and large systems, respectively.