- Darren J. Wilkinson, Stochastic Modelling for Systems Biology, Taylor & Francis, New York, 2006. Good introduction to stochastic Petri nets, with applications to gene expression and the Lotka-Volterra equations for predator-prey interactions.
Chapter on case studies has the following applications, with simulation lab exercises:
- Dimerization kinetics
- Michaelis-Menten enzyme kinetics
- An auto-regulatory genetic network
- The lac operon
In this thread we'll look into the one on dimerization kinetics.