For Full-Text PDF, please login, if you are a member of IEICE,|
or go to Pay Per View on menu list, if you are a nonmember of IEICE.
Simulating Cardiac Electrophysiology in the Era of GPU-Cluster Computing
Jun CHAI Mei WEN Nan WU Dafei HUANG Jing YANG Xing CAI Chunyuan ZHANG Qianming YANG
IEICE TRANSACTIONS on Information and Systems
Publication Date: 2013/12/01
Online ISSN: 1745-1361
Print ISSN: 0916-8532
Type of Manuscript: Special Section PAPER (Special Section on Parallel and Distributed Computing and Networking)
GPU cluster, simulation of cardiac electrophysiology, high resolution, monodomain equation, cardiac cell model,
Full Text: PDF(2.5MB)>>
This paper presents a study of the applicability of clusters of GPUs to high-resolution 3D simulations of cardiac electrophysiology. By experimenting with representative cardiac cell models and ODE solvers, in association with solving the monodomain equation, we quantitatively analyze the obtainable computational capacity of GPU clusters. It is found that for a 501×501×101 3D mesh, which entails a 0.1mm spatial resolution, a 128-GPU cluster only needs a few minutes to carry out a 100,000-time-step cardiac excitation simulation that involves a four-variable cell model. Even higher spatial and temporal resolutions are achievable for such simplified mathematical models. On the other hand, our experiments also show that a dramatically larger cluster of GPUs is needed to handle a very detailed cardiac cell model.