Objective
Many important cellular processes are controlled by networks of biochemical reactions. The individual components of the network and their interactions are often well known. However, the functioning of these networks remains an important issue for research. Recent research has shown that, due to the very low concentrations of molecules involved, biochemical networks are highly stochastic. Particle-based approaches are needed in order to model the large fluctuations that are involved. Spatial diffusion, localized clustering of molecules and spatial fluctuations are all-important issues that can only be approached by a spatially resolved modelling approach. Current particle-based methods do not resolve the positions of individual particles in space. The proposed project involves the development of a new computer simulation scheme for biochemical networks. This will be particle-based and spatially resolved and so Will naturally address the difficulties of the current methods. The new scheme will represent a considerable advance in computer simulation methodology, since twill allows simulation on timescales up to minutes. To do this, it will use existing analytical solutions of the Schmoluchowski equation for diffusing reactive pairs of particles.
These will be used for time propagation, allowing very large timesteps, limited only by the need for only one collision to occur per particle per timestep. The method will then be applied to several well-characterized examples of biochemical networks. Simple genetic networks, in which DNA is used to make proteins which in turn influence their own production from the DNA, will be modelled in collaboration with experimental workers. Bad erial chemotaxis, which ¡s a mechanism by which bacteria detect and respond to external signals, will also be modelled. The new method will be tested against previous experimental and theoretical results on these systems.
Fields of science (EuroSciVoc)
CORDIS classifies projects with EuroSciVoc, a multilingual taxonomy of fields of science, through a semi-automatic process based on NLP techniques. See: The European Science Vocabulary.
CORDIS classifies projects with EuroSciVoc, a multilingual taxonomy of fields of science, through a semi-automatic process based on NLP techniques. See: The European Science Vocabulary.
- natural sciences biological sciences cell biology
- natural sciences mathematics applied mathematics mathematical model
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Keywords
Project’s keywords as indicated by the project coordinator. Not to be confused with the EuroSciVoc taxonomy (Fields of science)
Project’s keywords as indicated by the project coordinator. Not to be confused with the EuroSciVoc taxonomy (Fields of science)
Programme(s)
Multi-annual funding programmes that define the EU’s priorities for research and innovation.
Multi-annual funding programmes that define the EU’s priorities for research and innovation.
Topic(s)
Calls for proposals are divided into topics. A topic defines a specific subject or area for which applicants can submit proposals. The description of a topic comprises its specific scope and the expected impact of the funded project.
Calls for proposals are divided into topics. A topic defines a specific subject or area for which applicants can submit proposals. The description of a topic comprises its specific scope and the expected impact of the funded project.
Call for proposal
Procedure for inviting applicants to submit project proposals, with the aim of receiving EU funding.
Procedure for inviting applicants to submit project proposals, with the aim of receiving EU funding.
FP6-2002-MOBILITY-5
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Funding Scheme
Funding scheme (or “Type of Action”) inside a programme with common features. It specifies: the scope of what is funded; the reimbursement rate; specific evaluation criteria to qualify for funding; and the use of simplified forms of costs like lump sums.
Funding scheme (or “Type of Action”) inside a programme with common features. It specifies: the scope of what is funded; the reimbursement rate; specific evaluation criteria to qualify for funding; and the use of simplified forms of costs like lump sums.
Coordinator
UTRECHT
Netherlands
The total costs incurred by this organisation to participate in the project, including direct and indirect costs. This amount is a subset of the overall project budget.