| EPSRC Reference: |
EP/E031439/1 |
| Title: |
SIGNAL: Stochastic process algebra for biochemical signalling pathway analysis |
| Principal Investigator: |
Hillston, Professor J |
| Other Investigators: |
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| Researcher Co-Investigators: |
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| Project Partners: |
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| Department: |
Lab. for Foundations of Computer Science |
| Organisation: |
University of Edinburgh |
| Scheme: |
Standard Research |
| Starts: |
01 September 2007 |
Ends: |
31 January 2011 |
Value (£): |
281,804
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| EPSRC Research Topic Classifications: |
| Fundamentals of Computing |
Theoretical biology |
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| EPSRC Industrial Sector Classifications: |
| No relevance to Underpinning Sectors |
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| Panel History: |
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Summary on Grant Application Form |
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The science of computational Systems Biology uses computer modellingof living organisms to help us understand those process at work insidewhich we cannot directly see or measure. Based on experimentallydetermined data, a systems biologist invents a model of how they thinkthat things work. The model is usually analysed by one of two kindsof computer simulation: stochastic or deterministic. In a stochasticsimulation the mathematical theory of probability is used to express adegree of uncertainty about how fast reactions happen or thequantities of reactants which are in use. In a deterministicsimulation the theory of ordinary differential equations is used togive an efficient continuous approximation of very large numbers ofmolecular elements. Computational modelling is helpful here becauselaboratory-based experimentation is an extremely expensive,time-consuming and labour-intensive process. An important subject forcomputational modelling is signal transduction.Signal transduction pathways are biochemical pathways which allowcells to sense a stimulus and communicate a signal to the nucleus,which then makes a suitable response. They are complicated signallingprocesses with built-in feedback mechanisms. Signalling pathways areembedded in larger networks and are involved in important processessuch as proliferation, cell growth, movement, cell communication, andprogrammed cell death (apoptosis). Malfunction results in a largenumber of diseases including cancer, diabetes and many others. Despiteenormous experimental advances in recent years there is still anabsence of good, predictive pathway models which can guideexperimentation and drug development. To date, models either encodestatic aspects such as which proteins have the potential to interact,or provide simulations of system dynamics using ordinary differentialequations.We will develop a novel approach to analytic pathway modelling basedon our experience of modelling concurrent computing systems. The keyidea is that pathways have stochastic, computational content. We willmodel pathways using stochastic process algebras which denotecontinuous time Markov chains thus affording new quantitative analysisand new ways to structure pathways and reason about incompletebehaviour.
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Key Findings |
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This information can now be found on Gateway to Research (GtR) http://gtr.rcuk.ac.uk
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Potential use in non-academic contexts |
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This information can now be found on Gateway to Research (GtR) http://gtr.rcuk.ac.uk
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Impacts |
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| Description |
This information can now be found on Gateway to Research (GtR) http://gtr.rcuk.ac.uk |
| Summary |
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| Date Materialised |
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Sectors submitted by the Researcher |
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This information can now be found on Gateway to Research (GtR) http://gtr.rcuk.ac.uk
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| Project URL: |
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| Further Information: |
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| Organisation Website: |
http://www.ed.ac.uk |