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An analysis for proving temporal properties of biological systems. (English) Zbl 1168.68438
Kobayashi, Naoki (ed.), Programming languages and systems. 4th Asian symposium, APLAS 2006, Sydney, Australia, November 8–10, 2006. Proceedings. Berlin: Springer (ISBN 978-3-540-48937-5/pbk). Lecture Notes in Computer Science 4279, 234-252 (2006).
Summary: This paper concerns the application of formal methods to biological systems, modeled specifically in BioAmbients [A. Regev, E. M. Panina, W. Silverman, L. Cardelli and E. Shapiro, “BioAmbients: an abstraction for biological compartments”, Theor. Comput. Sci. 325, No. 1, 141–167 (2004; Zbl 1069.68569)], a variant of the Mobile Ambients [L. Cardelli and A. D. Gordon, “Mobile ambients”, Theor. Comput. Sci. 240, No. 1, 177–213 (2000; Zbl 0954.68108)] calculus. Following the semantic-based approach of abstract interpretation, we define a new static analysis that computes an abstract transition system. Our analysis has two main advantages with respect to the analyses appearing in literature: (i) it is able to address temporal properties which are more general than invariant properties; (ii) it supports, by means of a particular labeling discipline, the validation of systems where several copies of an ambient may appear.
For the entire collection see [Zbl 1133.68007].

MSC:
68Q85 Models and methods for concurrent and distributed computing (process algebras, bisimulation, transition nets, etc.)
92C40 Biochemistry, molecular biology
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