Measurable Stochastics for Brane Calculus
Giorgio Bacci (DiMI, University of Udine), Marino Miculan (DiMI,, University of Udine)
TL;DR
This paper introduces a stochastic extension to Brane Calculus by defining a measure-based semantics and a labelled transition system, enabling probabilistic reasoning about biological membrane processes.
Contribution
It develops a measurable stochastic semantics for Brane Calculus, including a labelled transition system and a compositional SOS framework, advancing the modeling of biological systems.
Findings
Semantics of Brane processes as measures over derivations
Markov process representation of brane systems
A compositional SOS for stochastic semantics
Abstract
We give a stochastic extension of the Brane Calculus, along the lines of recent work by Cardelli and Mardare. In this presentation, the semantics of a Brane process is a measure of the stochastic distribution of possible derivations. To this end, we first introduce a labelled transition system for Brane Calculus, proving its adequacy w.r.t. the usual reduction semantics. Then, brane systems are presented as Markov processes over the measurable space generated by terms up-to syntactic congruence, and where the measures are indexed by the actions of this new LTS. Finally, we provide a SOS presentation of this stochastic semantics, which is compositional and syntax-driven.
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