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P Systems, a New Computational Modelling Tool for Systems Biology

Opened Access P Systems, a New Computational Modelling Tool for Systems Biology


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Autor: Pérez Jiménez, Mario de Jesús
Romero Campero, Francisco José
Departamento: Universidad de Sevilla. Departamento de Ciencias de la Computación e Inteligencia Artificial
Fecha: 2006
Publicado en: Transactions on Computational Systems Biology VI. Lecture Notes in Computer Science, vol 4220
ISBN/ISSN: 978-3-540-45779-4
Tipo de documento: Capítulo de Libro
Resumen: In this paper we present P systems as a reliable computa- tional modelling tool for Systems Biology that takes into account the discrete character of the quantity of components of biological systems, the inherently randomness in biological phenomena and the key role played by membranes in the function of living cells. We will introduce two different strategies for the evolution of P systems, namely, Multi- compartmental Gillespie’s Algorithm based on the well known Gillespie’s Algorithm but running on more than one compartment; and Determin- istic Waiting Times Algorithm, an exact deterministic method. In order to illustrate these two strategies we have modelled two biological sys- tems: the EGFR Signalling Cascade and the Quorum Sensing System in the bacterium Vibrio Fischeri. Our simulations results show that for the former system a deterministic approach is valid whereas for the latter a stochastic approach like Multi-compartmental Gillespie’s Algorithm is necessary.
Tamaño: 568.1Kb
Formato: PDF


DOI: 10.1007/11880646_8

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