CellML metadata standards, associated tools and repositories

被引:45
作者
Beard, Daniel A. [3 ]
Britten, Randall [1 ]
Cooling, Mike T. [1 ]
Garny, Alan [2 ]
Halstead, Matt D. B. [1 ]
Hunter, Peter J. [1 ,2 ]
Lawson, James [1 ]
Lloyd, Catherine M. [1 ]
Marsh, Justin [1 ]
Miller, Andrew [1 ]
Nickerson, David P. [4 ]
Nielsen, Poul M. F. [1 ]
Nomura, Taishin [6 ]
Subramanium, Shankar [5 ]
Wimalaratne, Sarala M. [1 ]
Yu, Tommy [1 ]
机构
[1] Univ Auckland, Auckland Bioengn Inst, Auckland 1142, New Zealand
[2] Univ Oxford, Dept Physiol Anat & Genet, Oxford OX1 2JD, England
[3] Med Coll Wisconsin, Dept Physiol, Milwaukee, WI 53226 USA
[4] Natl Univ Singapore, Div Bioengn, Singapore 117574, Singapore
[5] Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA
[6] Osaka Univ, Dept Mech Sci & Bioengn, Suita, Osaka 5650871, Japan
来源
PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES | 2009年 / 367卷 / 1895期
基金
英国惠康基金;
关键词
CellML; markup languages; metadata; modelling; MODELS; KINETICS; ELECTROPHYSIOLOGY; THERMODYNAMICS; MYOCYTE;
D O I
10.1098/rsta.2008.0310
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
The development of standards for encoding mathematical models is an important component of model building and model sharing among scientists interested in understanding multi-scale physiological processes. CellML provides such a standard, particularly for models based on biophysical mechanisms, and a substantial number of models are now available in the CellML Model Repository. However, there is an urgent need to extend the current CellML metadata standard to provide biological and biophysical annotation of the models in order to facilitate model sharing, automated model reduction and connection to biological databases. This paper gives a broad overview of a number of new developments on CellML metadata and provides links to further methodological details available from the CellML website.
引用
收藏
页码:1845 / 1867
页数:23
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