Stochastic modeling of biochemical systems with multistep reactions using state-dependent time delay.

ABSTRACT: To deal with the growing scale of molecular systems, sophisticated modelling techniques have been designed in recent years to reduce the complexity of mathematical models. Among them, a widely used approach is delayed reaction for simplifying multistep reactions. However, recent research results suggest that a delayed reaction with constant time delay is unable to describe multistep reactions accurately. To address this issue, we propose a novel approach using state-dependent time delay to approximate multistep reactions. We first use stochastic simulations to calculate time delay arising from multistep reactions exactly. Then we design algorithms to calculate time delay based on system dynamics precisely. To demonstrate the power of proposed method, two processes of mRNA degradation are u

SUBMITTER: Wu Q 

PROVIDER: S-EPMC4995396 | biostudies-literature | 2016 Aug

REPOSITORIES: biostudies-literature