Colouring Space - A Coloured Framework for Spatial Modelling in Systems Biology
2013; Springer Science+Business Media; Linguagem: Inglês
10.1007/978-3-642-38697-8_13
ISSN1611-3349
AutoresDavid Gilbert, Monika Heiner, Fei Liu, Nigel J. Saunders,
Tópico(s)Microbial Metabolic Engineering and Bioproduction
ResumoIn this paper we introduce a technique to encode spatial attributes of dynamic systems using coloured Petri nets and show how it can be applied to biological systems within the spirit of BioModel Engineering. Our approach can be equally applied to qualitative, stochastic, continuous or hybrid models of the same physical system, and can be used as the basis for multiscale modelling. We illustrate our approach with two case studies, one from the continuous and one from the stochastic paradigm. In this paper we only discuss the case of finite colours, and by unfolding our method can take advantage of all the analytical machinery and simulation techniques that have been developed for the uncoloured family of Petri net classes.
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