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A process model of Rho GTP-binding proteins. (English) Zbl 1173.68040
Summary: Rho GTP-binding proteins play a key role as molecular switches in many cellular activities. In response to extracellular stimuli and with the help of regulators (GEF, GAP, Effector, GDI), these proteins serve as switches that interact with their environment in a complex manner. Based on the structure of a published Ordinary Differential Equations (ODE) model, we first present a generic process model for the Rho GTP-binding proteins, and compare it with the ODE model. We then extend the basic model to include the behaviour of the GDI regulators and explore the parameter space for the extended model with respect to biological data from the literature. We discuss the challenges this extension brings and the directions of further research. In particular, we present techniques for modular representation and refinement of process models, where, for example, different Rho proteins with different rates for regulator interactions can be given as instances of the same parametric model.

MSC:
68Q85 Models and methods for concurrent and distributed computing (process algebras, bisimulation, transition nets, etc.)
92B05 General biology and biomathematics
92C37 Cell biology
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