High-throughput cardiac science on the Grid

Author:

Abramson David1,Bernabeu Miguel O.2,Bethwaite Blair1,Burrage Kevin2,Corrias Alberto2,Enticott Colin1,Garic Slavisa1,Gavaghan David2,Peachey Tom1,Pitt-Francis J.2,Pueyo E.2,Rodriguez Blanca2,Sher Anna3,Tan Jefferson1

Affiliation:

1. Faculty of Information Technology, Monash University, Caulfield East, Melbourne, Victoria 3145, Australia

2. Oxford University Computing Laboratory, Wolfson Building, Parks Road, Oxford OX1 3QD, UK

3. Department of Physiology, Anatomy and Genetics, University of Oxford, Le Gros Clark Building, South Parks Road, Oxford OX1 3QX, UK

Abstract

Cardiac electrophysiology is a mature discipline, with the first model of a cardiac cell action potential having been developed in 1962. Current models range from single ion channels, through very complex models of individual cardiac cells, to geometrically and anatomically detailed models of the electrical activity in whole ventricles. A critical issue for model developers is how to choose parameters that allow the model to faithfully reproduce observed physiological effects without over-fitting. In this paper, we discuss the use of a parametric modelling toolkit, called N imrod , that makes it possible both to explore model behaviour as parameters are changed and also to tune parameters by optimizing model output. Importantly, N imrod leverages computers on the Grid, accelerating experiments by using available high-performance platforms. We illustrate the use of N imrod with two case studies, one at the cardiac tissue level and one at the cellular level.

Publisher

The Royal Society

Subject

General Physics and Astronomy,General Engineering,General Mathematics

Reference31 articles.

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