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

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 ba...

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Bibliographic Details
Main Authors: Proß Sabrina, Bachmann Bernhard
Format: Article
Language:English
Published: De Gruyter 2011-03-01
Series:Journal of Integrative Bioinformatics
Online Access:https://doi.org/10.2390/biecoll-jib-2011-152
Description
Summary: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.
ISSN:1613-4516