Universität Bielefeld Electronic Collections animiertes Foto Universität Bielefeld

Access to the Document

An Advanced Environment for Hybrid Modeling of Biological Systems Based on Modelica

Proß, Sabrina ; Bachmann, Bernhard

Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516)

Download file

Biological systems are often very complex so that an appropriate formalism is needed for modeling their behavior. Hybrid Petri Nets, consisting of time-discrete Petri Net elements as well as continuous ones, have proven to be ideal for this task. Therefore, a new Petri Net library was implemented based on the object-oriented modeling language Modelica which allows the modeling of discrete, stochastic and continuous Petri Net elements by differential, algebraic and discrete equations. An appropriate Modelica-tool performs the hybrid simulation with discrete events and the solution of continuous differential equations. A special sub-library contains so-called wrappers for specific reactions to simplify the modeling process. The Modelica-models can be connected to Simulink-models for parameter optimization, sensitivity analysis and stochastic simulation in Matlab. The present paper illustrates the implementation of the Petri Net component models, their usage within the modeling process and the coupling between the Modelica-tool Dymola and Matlab/Simulink. The application is demonstrated by modeling the metabolism of Chinese Hamster Ovary Cells.

Institution: Faculty of Technology, Research Groups in Informatics
DDC classification: Data processing, computer science, computer systems

Suggested Citation:
Proß, Sabrina ; Bachmann, Bernhard  (2011)  An Advanced Environment for Hybrid Modeling of Biological Systems Based on Modelica. Journal of Integrative Bioinformatics - JIB (ISSN 1613-4516), 8(1), 2011

Online-Journal: http://journal.imbio.de/article.php?aid=152
URL: http://biecoll.ub.uni-bielefeld.de/volltexte/2011/5061

 Questions or comments: publikationsdienste.ub@uni-bielefeld.de
 Latest update: 23 June 2015
 Legal Notice
OPUS-Logo     OAI compliant      BU Logo