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...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
| Published: |
De Gruyter
2011-03-01
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| Series: | Journal of Integrative Bioinformatics |
| Online Access: | https://doi.org/10.2390/biecoll-jib-2011-152 |
| _version_ | 1818727784164360192 |
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| author | Proß Sabrina Bachmann Bernhard |
| author_facet | Proß Sabrina Bachmann Bernhard |
| author_sort | Proß Sabrina |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-12-17T22:19:36Z |
| format | Article |
| id | doaj.art-d013087668af4742bd1eca327908261b |
| institution | Directory Open Access Journal |
| issn | 1613-4516 |
| language | English |
| last_indexed | 2024-12-17T22:19:36Z |
| publishDate | 2011-03-01 |
| publisher | De Gruyter |
| record_format | Article |
| series | Journal of Integrative Bioinformatics |
| spelling | doaj.art-d013087668af4742bd1eca327908261b2022-12-21T21:30:31ZengDe GruyterJournal of Integrative Bioinformatics1613-45162011-03-018113410.2390/biecoll-jib-2011-152An Advanced Environment for Hybrid Modeling of Biological Systems Based on ModelicaProß Sabrina0Bachmann Bernhard1University of Applied Sciences Bielefeld, Am Stadtholz 24, 33609 Bielefeld, http://www.fh-bielefeld.de/ammo, GermanyUniversity of Applied Sciences Bielefeld, Am Stadtholz 24, 33609 Bielefeld, http://www.fh-bielefeld.de/ammo, GermanyBiological 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.https://doi.org/10.2390/biecoll-jib-2011-152 |
| spellingShingle | Proß Sabrina Bachmann Bernhard An Advanced Environment for Hybrid Modeling of Biological Systems Based on Modelica Journal of Integrative Bioinformatics |
| title | An Advanced Environment for Hybrid Modeling of Biological Systems Based on Modelica |
| title_full | An Advanced Environment for Hybrid Modeling of Biological Systems Based on Modelica |
| title_fullStr | An Advanced Environment for Hybrid Modeling of Biological Systems Based on Modelica |
| title_full_unstemmed | An Advanced Environment for Hybrid Modeling of Biological Systems Based on Modelica |
| title_short | An Advanced Environment for Hybrid Modeling of Biological Systems Based on Modelica |
| title_sort | advanced environment for hybrid modeling of biological systems based on modelica |
| url | https://doi.org/10.2390/biecoll-jib-2011-152 |
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