Simulation strategy of membrane computing to characterize the structure and non-deterministic behavior of biological systems: a case study with ligand-receptor network of protein TGF-β

Authors:
Muniyandi Ravie Chandren;Mohd. Zin Abdullah
Affiliations:
School of Computer Science, Faculty of Information Science and Technology, University Kebangsaan Malaysia, Selangor, Malaysia;School of Information Technology, Faculty of Information Science and Technology, University Kebangsaan Malaysia, Selangor, Malaysia
Venue:
IVIC'11 Proceedings of the Second international conference on Visual informatics: sustaining research and innovations - Volume Part I
Year:
2011

Citing 4
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Abstract

The processes in biological systems evolve in discrete and nondeterministic ways. Simulation of conventional models such as ordinary differential equations with continuous and deterministic evolution strategy has disregarded those behaviors in biological systems. Membrane computing which has been applied in a nondeterministic and maximally parallel way to capture the structure and behaviors of biological systems could be used to address the limitations in ordinary differential equations. The stochastic simulation strategy based on Gillespie's algorithm has been used to simulate membrane computing model. This study was carried out to demonstrate the capability of membrane computing model in characterizing the structure and behaviors of biological systems in comparison to the model of ordinary differential equations. The results demonstrated that the simulation of membrane computing model preserves the structure and non-deterministic behaviors of biological systems that ignored in the ordinary differential equations model.