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Model abstraction and multiscale physiological modelling: Examples from the Physiome Project.

Peter J. Hunter1*
  • 1 University of Auckland, Auckland Bioengineering Institute, New Zealand

The Physiome Project of the International Union of Physiological Sciences (IUPS) is attempting to provide a comprehensive framework for modelling the human body using computational methods that can incorporate the biochemistry, biophysics and anatomy of cells, tissues and organs. A major goal of the project is to use computational modelling to analyse integrative biological function in terms of underlying structure and molecular mechanisms. It is also establishing web-accessible physiological databases dealing with model-related data at the cell, tissue, organ and organ system levels. A newly formed EU Network of Excellence for the Virtual Physiological Human (VPH) is also contributing and, in particular, addressing clinical applications of the project.

The application of this framework to modeling the heart and other organs will be discussed, with particular reference to model abstraction and multi-scale physiological modeling.

The talk will also briefly describe current progress in the development of XML markup languages, such as CellML and FieldML, for standardised encoding of models, and the model repositories, graphical user interfaces and the open source computational software being developed under the VPH/IUPS Physiome Project for computational physiology.

References

1. 1. Hunter, P.J. and Borg, T.K. Integration from proteins to organs: The Physiome Project. Nature Reviews Molecular and Cell Biology. 4, 237-243, 2003.

2. 2. Hunter, P.J. and Nielsen, P.M.F. A strategy for integrative computational physiology. Physiology. 20,316-325, 2005.

3. 3. Hunter, P.J., Crampin, E.J. and Nielsen, P.M.F. Bioinformatics, multiscale modelling and the IUPS Physiome Project. Briefings in Bioinformatics. 9 (4), 333-343, 2008.

4. 4. Cooling, M., Hunter, P. J. and Crampin, E. J., Modeling biological modularity with CellML, IET Systems Biology Journal, 2, 73-79, 2008.

5. 5. Christie, R., Nielsen, P.M.F., Blackett, S., Bradley, C. and Hunter, P.J. FieldML: Standards, tools and repositories. Phil. Trans. Roy. Soc. A 367, 1869-1884, 2009.

Conference: Neuroinformatics 2009, Pilsen, Czechia, 6 Sep - 8 Sep, 2009.

Presentation Type: Oral Presentation

Citation: Hunter PJ (2019). Model abstraction and multiscale physiological modelling: Examples from the Physiome Project.. Front. Neuroinform. Conference Abstract: Neuroinformatics 2009. doi: 10.3389/conf.neuro.11.2009.08.132

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Received: 10 Jun 2009; Published Online: 09 May 2019.

* Correspondence: Peter J Hunter, University of Auckland, Auckland Bioengineering Institute, Auckland, New Zealand, p.hunter@auckland.ac.nz