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Stochastic simulation for spatial modelling of dynamic process in a living cell

Burrage, Kevin, Burrage, Pamela, Leier, Andre , Marquez-Lago, Tatiana , & Nicolau Jr., Dan (2011) Stochastic simulation for spatial modelling of dynamic process in a living cell. In Koeppl, H., Densmore, D., Setti, G., & di Bernardo, M. (Eds.) Design and Analysis of Biomolecular Circuits: Engineering Approaches to Systems and Synthetic Biology. Springer Science+Business Media, pp. 43-62.

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    Abstract

    One of the fundamental motivations underlying computational cell biology is to gain insight into the complicated dynamical processes taking place, for example, on the plasma membrane or in the cytosol of a cell. These processes are often so complicated that purely temporal mathematical models cannot adequately capture the complex chemical kinetics and transport processes of, for example, proteins or vesicles. On the other hand, spatial models such as Monte Carlo approaches can have very large computational overheads. This chapter gives an overview of the state of the art in the development of stochastic simulation techniques for the spatial modelling of dynamic processes in a living cell.

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    ID Code: 45889
    Item Type: Book Chapter
    Additional URLs:
    Keywords: Plasma membrane, Chemical kinetics, Gene regulation, Stochastic simulation algorithm, Multiscale stochastic modelling, Diffusion, Delayed reactions, Stochastic simulators
    DOI: 10.1007/978-1-4419-6766-4_2
    ISBN: 9781441967657
    Subjects: Australian and New Zealand Standard Research Classification > ENGINEERING (090000) > BIOMEDICAL ENGINEERING (090300)
    Divisions: Current > Schools > School of Electrical Engineering & Computer Science
    Current > QUT Faculties and Divisions > Science & Engineering Faculty
    Past > Schools > Mathematical Sciences
    Copyright Owner: Copyright 2011 Springer Science+Business Media
    Copyright Statement: The original publication is available at SpringerLink http://www.springerlink.com
    Deposited On: 12 Sep 2011 08:52
    Last Modified: 18 Jun 2012 02:56

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