Integrating diverse reaction types into stochastic models — A signaling pathway case study in the Imperative π-Calculus

摘要

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 ¿-Calculus based approach by deploying the Imperative ¿-Calculus.