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.

Stochastic Calculus of Wrapped Compartments

COPPO, Mario;DAMIANI, Ferruccio;DROCCO, MAURIZIO;GRASSI, ELENA;TROINA, ANGELO
2010-01-01

Abstract

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.
2010
Eighth Workshop on Quantitative Aspects of Programming Languages (QAPL 2010)
Paphos, Cyprus
March 27-28, 2010
28
82
98
http://arxiv.org/abs/1006.5099v1
http://rvg.web.cse.unsw.edu.au/eptcs/content.cgi?QAPL2010
CWC; stochastic rewrite systems
M. Coppo; F. Damiani; M. Drocco; E. Grassi; A. Troina
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/2318/79953
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