High-throughput cardiac science on the Grid
High-throughput cardiac science on the Grid
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DOI：
10.1098/rsta.2010.0170
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发表时间：
2010-08-28
期刊：
影响因子：
5
通讯作者：
Tan, Jefferson
中科院分区：
文献类型：
--
作者：
Abramson, David;Bernabeu, Miguel O.;Tan, Jefferson
心脏电生理学是一门成熟的学科，心肌细胞动作电位的第一个模型在1962年被开发出来。目前的模型范围从单个离子通道到非常复杂的单个心肌细胞模型，再到整个心室电活动的几何和解剖细节模型。模型开发人员面临的一个关键问题是如何选择参数，使模型能够忠实地再现观察到的生理效应，而不会过度拟合。在本文中，我们讨论了参数化建模工具包NIMROD的使用，它可以在参数改变时探索模型行为，也可以通过优化模型输出来调整参数。重要的是，NIMROD利用网格上的计算机，通过使用可用的高性能平台加速实验。我们用两个案例研究来说明NIMROD的使用，一个在心脏组织水平，一个在细胞水平。
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 NIMROD, that makes it possible both to explore model behaviour as parameters are changed and also to tune parameters by optimizing model output. Importantly, NIMROD leverages computers on the Grid, accelerating experiments by using available high-performance platforms. We illustrate the use of NIMROD with two case studies, one at the cardiac tissue level and one at the cellular level.