Multi-level dynamic modeling in biological systems: Application of hybrid Petri nets to network simulation

Rafael S. Costa, Daniel Machado, Ana Rute Neves, Susana Vinga

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Abstract

The recent progress in the high-throughput experimental technologies allows the reconstruction of many biological networks and to evaluate changes in proteins, genes and metabolites levels in different conditions. On the other hand, computational models, when complemented with regulatory information, can be used to predict the phenotype of an organism under different genetic and environmental conditions. These computational methods can be used for example to identify molecular targets capable of inactivating a bacterium and to understand its virulence factors. This work proposes a hybrid metabolic-regulatory Petri net approach that is based on the combination of approximate enzyme-kinetic rate laws and Petri nets. A prototypic network model is used as a test-case to illustrate the application of these concepts in Systems Biology.
Original languageEnglish
Title of host publicationProceedings of the International Conference on Bioinformatics Models, Methods and Algorithms
PublisherSciTePress
Publication date2012
Pages317-321
DOIs
Publication statusPublished - 2012
Externally publishedYes

Cite this

Costa, R. S., Machado, D., Neves, A. R., & Vinga, S. (2012). Multi-level dynamic modeling in biological systems: Application of hybrid Petri nets to network simulation. In Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms (pp. 317-321). SciTePress. https://doi.org/10.5220/0003785503170321