Modeling allows us to focus on the important components of a system under study, leaving aside the non-meaningful information. To study metabolic networks, we need to create a new model of the phenomena in order to start the simulations. Here, we propose a method for automating modeling and simulation of biological cell processes using DEVS. We have built a parser and a model-generator in order to read SBML files and generate the model from the data. We also defined a generic model container for a biological cell including essential attributes of a cell, which can be instantiated using SBML to generate individual models.

Additional Metadata
Conference 2016 TMS/DEVS Symposium on Theory of Modeling and Simulation, TMS/DEVS 2016, Part of the 2016 Spring Simulation Multiconference, SpringSim 2016
Citation
Belloli, L. (Laouen), Wainer, G.A, & Najmanovich, R. (Rafael). (2016). Parsing and model generation for biological processes. In Proceedings of the 2016 Spring Simulation Multiconference - TMS/DEVS Symposium on Theory of Modeling and Simulation, TMS/DEVS 2016.