Publications

This paper describes preliminary results on the application of statistical model-checking to systems described with Stochastic CLS. Stochastic CLS is a formalism based on term rewriting that allows biomolecular systems to be described by taking into account their structure and by allowing very general events to be modelled. Statistical model-checking is an analysis technique that permits properties of a system to be studied on the results of a number of stochastic simulations. We choose Real-Time Maude as a tool that supports the modelling and analysis of systems with real-time properties. We adapt Gillespie's algorithm for simulating chemical systems into our approach. The resulting method is applied to analyse some simple examples and a model of the lactose operon regulation in E.coli.

 We present a methodology for modelling population dynamics with formal means of computer science. This allows unambiguous description of systems and application of analysis tools such as simulators and model checkers. In particular, the dynamics of a population of Aedes albopictus (a species of mosquito) and its modelling with the Stochastic Calculus of Looping Sequences (Stochastic CLS) are considered. The use of Stochastic CLS to model population dynamics requires an extension which allows environmental events (such as changes in the temperature and rainfalls) to be taken into account. A simulator for the constructed model is developed via translation into the specification language Maude, and used to compare the dynamics obtained from the model with real data.