DEVS modelling and simulation of the cellular metabolism by mitochondria |
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| Authors: | Gabriel Wainer Roxana Djafarzadeh |
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| Institution: | 1. Systems and Computer Engineering , Carleton University , 1125 Colonel By Drive, Ottawa, ON, Canada , K1S 5B6gwainer@sce.carleton.ca;3. School of Information Technology and Engineering, University of Ottawa , 800 King Edward Avenue, Ottawa, ON, Canada , K1N 6N5 |
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| Abstract: | We present a method for modelling and simulating metabolic pathways in the cells (namely, the glycolysis and Krebs' cycle), using the discrete event system specification (DEVS) formalism. The hierarchical nature of DEVS makes it ideal for describing naturally hierarchical systems as the Cell, while its discrete-event approach improves performance due to the asynchronous nature of the events involved. DEVS time-based nature can adequately represent the timing of the chemical reactions. We show how this methodology enables creating a precise and easy way to model and simulate biological systems, including advanced visualisation of the experiments. The results presented, which focus on the simulation of the cellular metabolism pathways in mitochondria, show the potential of our approach. |
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| Keywords: | DEVS CD++ mitochondria glycolysis Krebs' cycle |
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