Stochastic Calculus of Wrapped Compartments

Mario Coppo
(Dipartimento di Informatica, Università di Torino)
Ferruccio Damiani
(Dipartimento di Informatica, Università di Torino)
Maurizio Drocco
(Dipartimento di Informatica, Università di Torino)
Elena Grassi
(Dipartimento di Informatica and Molecular Biotechnology Center, Dipartimento di Genetica, Biologia e Biochimica, Università di Torino)
Angelo Troina
(Dipartimento di Informatica, Università di Torino)

The Calculus of Wrapped Compartments (CWC) is a variant of the Calculus of Looping Sequences (CLS). While keeping the same expressiveness, CWC strongly simplifies the development of automatic tools for the analysis of biological systems. The main simplification consists in the removal of the sequencing operator, thus lightening the formal treatment of the patterns to be matched in a term (whose complexity in CLS is strongly affected by the variables matching in the sequences).

We define a stochastic semantics for this new calculus. As an application we model the interaction between macrophages and apoptotic neutrophils and a mechanism of gene regulation in E.Coli.

In Alessandra Di Pierro and Gethin Norman: Proceedings Eighth Workshop on Quantitative Aspects of Programming Languages (QAPL 2010), Paphos, Cyprus, 27-28th March 2010 , Electronic Proceedings in Theoretical Computer Science 28, pp. 82–98.
Published: 26th June 2010.

ArXived at: http://dx.doi.org/10.4204/EPTCS.28.6 bibtex PDF

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