OpenCMISS: A multi-physics & multi-scale computational infrastructure for the VPH/Physiome project
文献类型：期刊论文
| 作者 | Chris Bradley; Andy Bowery; Randall Britten; Vincent Budelmann; Oscar Camara; Richard Christie; Andrew Cookson; Alejandro F. Frangi; Thiranja Babarenda Gamage; Thomas Heidlauf |
| 刊名 | PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY
 |
| 出版日期 | 2011 |
| 卷号 | 107期号:1页码:32-47 |
| 英文摘要 | The VPH/Physiome Project is developing the model encoding standards CellML (cellml.org) and FieldML (fieldml.org) as well as web-accessible model repositories based on these standards (models.physiome.org). Freely available open source computational modelling software is also being developed to solvethe partial differential equations described by the models and to visualise results. The OpenCMISS code (opencmiss.org), described here, has been developed by the authors over the last six years to replace the CMISS code that has supported a number of organ system Physiome projects. OpenCMISS is designed to encompass multiple sets of physical equations and to link subcellular and tissue-level biophysical processes into organ-level processes. In the Heart Physiome project, for example, the large deformation mechanics of the myocardial wall need to be coupled to both ventricular flow and embedded coronary flow, and the reaction diffusion equations that govern the propagation of electrical waves through myocardial tissue need to be coupled with equations that describe the ion channel currents that flow through the cardiac cell membranes. In this paper we discuss the design principles and distributed memory architecture behind the OpenCMISS code. We also discuss the design of the interfaces that link the sets of physical equations across common boundaries (such as fluid-structure coupling), or between spatial fields over the same domain (such as coupled electromechanics), and the concepts behind CellML and FieldML that are embodied in the OpenCMISS data structures. We show how all of these provide a flexible infrastructure for combining models developed across the VPH/Physiome community. |
| 收录类别 | SCI |
| 原文出处 | http://www.sciencedirect.com/science/article/pii/S0079610711000629 |
| 语种 | 英语 |
| 源URL | [http://ir.siat.ac.cn:8080/handle/172644/3216]  |
| 专题 | 深圳先进技术研究院_集成所 |
| 作者单位 | PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY |
| 推荐引用方式 GB/T 7714 | Chris Bradley,Andy Bowery,Randall Britten,et al. OpenCMISS: A multi-physics & multi-scale computational infrastructure for the VPH/Physiome project[J]. PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY,2011,107(1):32-47. |
| APA | Chris Bradley.,Andy Bowery.,Randall Britten.,Vincent Budelmann.,Oscar Camara.,...&Peter Hunter.(2011).OpenCMISS: A multi-physics & multi-scale computational infrastructure for the VPH/Physiome project.PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY,107(1),32-47. |
| MLA | Chris Bradley,et al."OpenCMISS: A multi-physics & multi-scale computational infrastructure for the VPH/Physiome project".PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY 107.1(2011):32-47. |
入库方式： OAI收割
来源：深圳先进技术研究院
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