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|Title:||Analysis of signalling pathways using the prism model checker|
|Publisher:||University of Edinburgh|
|Citation:||Proceedings of Third International CMSB 2005 (Computational Methods in Systems Biology), University of Edinburgh , 3-5 April 2005 , pp. 179-190|
|Abstract:||We describe a new modelling and analysis approach for signal transduction networks in the presence of incomplete data. We illustrate the approach with an example, the RKIP inhibited ERK pathway . Our models are based on high level descriptions of continuous time Markov chains: reactions are modelled as synchronous processes and concentrations are modelled by discrete, abstract quantities. The main advantage of our approach is that using a (continuous time) stochastic logic and the PRISM model checker, we can perform quantitative analysis of queries such as if a concentration reaches a certain level, will it remain at that level thereafter? We also perform standard simulations and compare our results with a traditional ordinary differential equation model. An interesting result is that for the example pathway, only a small number of discrete data values is required to render the simulations practically indistinguishable.|
|Appears in Collections:||Computer Science|
Dept of Computer Science Research Papers
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