We analyze two approaches to the modeling of biochemical systems, both well-established today and supported by a variety of computerized tools. One approach is based on the use of differential equations, the other on a calculus of communicating agents. As it turns out, the underlying view on time (dense and deterministic in one case, discrete and stochastic in the other) is a key distinctive feature. We contend that a unified framework could combine efficiency with accuracy in simulations. Hybrid systems of the envisaged kind should allow for a sensible interplay between the two views, and embody mechanisms for clustering $\pi$-calculus terms on the basis of features which the counterparting system of differential equations explicitly represents by variables.

Views of Time in Systems Biology

Abstract

We analyze two approaches to the modeling of biochemical systems, both well-established today and supported by a variety of computerized tools. One approach is based on the use of differential equations, the other on a calculus of communicating agents. As it turns out, the underlying view on time (dense and deterministic in one case, discrete and stochastic in the other) is a key distinctive feature. We contend that a unified framework could combine efficiency with accuracy in simulations. Hybrid systems of the envisaged kind should allow for a sensible interplay between the two views, and embody mechanisms for clustering $\pi$-calculus terms on the basis of features which the counterparting system of differential equations explicitly represents by variables.
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9782842541125
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Utilizza questo identificativo per citare o creare un link a questo documento: http://hdl.handle.net/11391/27787
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