In the last decades, experimental investigations have evidenced the role of biological noise in cellular processes, and several stochastic approaches have been proposed to modeling and simulation of biochemical networks. Here, we review the main stochastic procedures defined for single-volume biochemical systems (SSA, tau-leaping), and discuss their practical utility and limitations. Then, within the framework of membrane systems, we propose a multi-volume generalization of the tau-leaping algorithm, called τ-DPP, feasible for the stochastic analysis of complex biochemical systems. Finally, we present a case-study application of τ-DPP to an intracellular genetic oscillator, coupled with an intercellular communication mechanism.

(2009). A multi-volume approach to stochastic modeling with membrane systems . Retrieved from http://hdl.handle.net/10446/109190

A multi-volume approach to stochastic modeling with membrane systems

Cazzaniga, Paolo;Mauri, Giancarlo
2009-01-01

Abstract

In the last decades, experimental investigations have evidenced the role of biological noise in cellular processes, and several stochastic approaches have been proposed to modeling and simulation of biochemical networks. Here, we review the main stochastic procedures defined for single-volume biochemical systems (SSA, tau-leaping), and discuss their practical utility and limitations. Then, within the framework of membrane systems, we propose a multi-volume generalization of the tau-leaping algorithm, called τ-DPP, feasible for the stochastic analysis of complex biochemical systems. Finally, we present a case-study application of τ-DPP to an intracellular genetic oscillator, coupled with an intercellular communication mechanism.
2009
Besozzi, Daniela; Cazzaniga, Paolo; Pescini, Dario; Mauri, Giancarlo
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/10446/109190
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