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Practical application of CellML 1.1: The integration of new mechanisms into a human ventricular myocyte model
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Practical application of CellML 1.1: The integration of new mechanisms into a human ventricular myocyte model
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- Description
- CellML 1.1 was released as a formal specification in February 2006 with the first release of a complete
implementation of the CellML API following in December. The combination of these two developments
paves the way for a powerful new paradigm in mathematically modeling cardiac cellular electrophysiology.
In this article we explore the practical application of this paradigm using the example of
integrating new mechanisms into a well known model of human ventricular myocyte electrophysiology.
Through practical application of the CellML 1.1 paradigm we demonstrate the advantages inherent in
such an approach and contrast them to more traditional methods of model description, exchange, and
publication. This work has also provided the impetus for some recent developments in regard to CellML
metadata specifications. The development of the tools and techniques used in this work has helped
define some guidelines that should prove useful in future developments in this field. By following these
guidelines model authors can increase the usability of their work by other scientists.
This work presents the first attempt to utilize annotated CellML models to present not only the
underlying mathematical models but also specify the numerical simulations and graphical outputs in an
interchangeable, machine readable format. By doing so, all simulations are able to be duplicated by
anyone with access to a capable tool. Similarly, identical graphical representations of the numerical
simulation results can be produced.
D. Nickerson, M. Buist / Progress in Biophysics and Molecular Biology 98 (2008) 38–51
- Owner
- David Nickerson <david.nickerson@gmail.com>
- URI for git clone/pull/push
- https://models.cellml.org/w/andre/nickerson-2008
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