STEPS: efficient simulation of stochastic reaction-diffusion models in realistic morphologies.

ABSTRACT:

Background

Models of cellular molecular systems are built from components such as biochemical reactions (including interactions between ligands and membrane-bound proteins), conformational changes and active and passive transport. A discrete, stochastic description of the kinetics is often essential to capture the behavior of the system accurately. Where spatial effects play a prominent role the complex morphology of cells may have to be represented, along with aspects such as chemical localization and diffusion. This high level of detail makes efficiency a particularly important consideration for software that is designed to simulate such systems.

Results

We describe STEPS, a stochastic reaction-diffusion simulator developed with an emphasis on simulating biochemical signal

SUBMITTER: Hepburn I 

PROVIDER: S-EPMC3472240 | biostudies-literature | 2012 May

REPOSITORIES: biostudies-literature