By Topic

A Parallel Plasma Membrane Simulation

Sign In

Cookies must be enabled to login.After enabling cookies , please use refresh or reload or ctrl+f5 on the browser for the login options.

Formats Non-Member Member
$33 $13
Learn how you can qualify for the best price for this item!
Become an IEEE Member or Subscribe to
IEEE Xplore for exclusive pricing!
close button

puzzle piece

IEEE membership options for an individual and IEEE Xplore subscriptions for an organization offer the most affordable access to essential journal articles, conference papers, standards, eBooks, and eLearning courses.

Learn more about:

IEEE membership

IEEE Xplore subscriptions

7 Author(s)
Burrage, P.M. ; Inst. for Mol. Biosci. Australia, Univ. of Queensland, Brisbane, QLD, Australia ; Burrage, K. ; Kurowski, K. ; Lorenc, M.
more authors

The plasma membrane protects a cell and even though it is only about 10nm thick it is an incredibly complex and crowded environment, with ensembles of channels, membrane and trans-membrane proteins and microdomains. Hence modelling transport and dynamical processes on the plasma membrane is computationally demanding and in order for a simulation to model an entire cell membrane for several real-time seconds, a high-performance computing implementation is essential. Here we describe the domain decomposition of a plasma membrane simulation in a grid-computing environment. We discuss the issues that arise in balancing the communication requirements with the computational complexity, in both a master-slave and a slave-slave communication model. We also discuss performance and fidelity limitations arising through the necessity of frequent inter-process communication. This parallel implementation will allow systems biology researchers to analyse computationally the complex dynamical processes taking place on an entire cell membrane over a non-trivial time scale.

Published in:

High Performance Computational Systems Biology, 2009. HIBI '09. International Workshop on

Date of Conference:

14-16 Oct. 2009