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Integrating Diverse Reaction Types into Stochastic Models - A Signaling Pathway Case Study in the Imperative Pi-Calculus

Abstract : We present a case study of reusing parameters and reactions of a deterministic model of a biochemical system in order to implement a stochastic one. Our investigations base on a model of the Wnt signaling pathway and aim to study the influence of the cell cycle on the pathway's dynamics. We report on our approaches to solve two major challenges: one is to gather and convert kinetic model parameters, e.g. constants for diffusion and enzymatic reactions. The second challenge is to provide the first implementation of reactions that exhibit Michaelis-Menten kinetics into a pi-calculus based approach by deploying the imperative pi-calculus.
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https://hal.inria.fr/hal-00656195
Contributor : Mathias John <>
Submitted on : Tuesday, January 3, 2012 - 5:02:56 PM
Last modification on : Friday, January 8, 2021 - 4:54:06 PM
Long-term archiving on: : Wednesday, April 4, 2012 - 2:55:29 AM

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Orianne Mazemondet, Mathias John, Carsten Maus, Stefan Leye, Adelinde Uhrmacher, et al.. Integrating Diverse Reaction Types into Stochastic Models - A Signaling Pathway Case Study in the Imperative Pi-Calculus. Winter Simulation Conference (WSC) '09, Dec 2009, Austin, Texas, United States. ⟨10.1109/WSC.2009.5429723⟩. ⟨hal-00656195⟩

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