Conference article

An Advanced Environment for Hybrid Modeling and Parameter Identification of Biological Systems

Sabrina Proß
University of Applied Sciences Bielefeld, Germany

Bernhard Bachmann
University of Applied Sciences Bielefeld, Germany

Download articlehttp://dx.doi.org/10.3384/ecp11063557

Published in: Proceedings of the 8th International Modelica Conference; March 20th-22nd; Technical Univeristy; Dresden; Germany

Linköping Electronic Conference Proceedings 63:63, s. 557-571

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Published: 2011-06-30

ISBN: 978-91-7393-096-3

ISSN: 1650-3686 (print), 1650-3740 (online)

Abstract

Biological systems are often very complex so that an appropriate formalism is needed for modeling their behavior. Hybrid Petri nets; consisting of time-discrete as well as continuous Petri net elements; have proven to be ideal. This formalism was implemented based on the Modelica language. Several Petri net components are structured within an advanced Petri net library. A special sub library contains so-called wrappers for specific biological reac-tions to simplify the modeling procedure.

The Petri net models developed with the Dymola tool can be connected to Matlab Simulink to use all the Matlab power for parameter identification; sensitivity analysis and stochastic simulation.

This paper illustrates the usage of the Petri net library; the coupling to Matlab Simulink and further processing of the simulation results with algorithms in Matlab. In addition; the application is demonstrated by modeling the metabolism of Chinese Hamster Ovary Cells.

Keywords

Biological Systems; Petri nets; Parame-ter Identification

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