Multi-scale and multi-physics visualization

Blackett, Shane; Bullivant, David; Nickerson, David; Hunter, Peter

doi:10.1145/1186954.1187109

Cited by 1 publication

(1 citation statement)

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“…While the model presentation environments presented in §2d are well suited to the models of cellular electrophysiology, the typical large-scale model will encompass several spatial and temporal scales and potentially more than one type of underlying biophysical processes (Blackett et al 2005). These presentation environments are expected to adapt well to multi-scale and multi-physics model descriptions as the dynamic nature of the presentation environment will allow users to navigate between the spatial scales as easily as they allow the navigation between the demonstrated components.…”

Section: Large-scale Modelsmentioning

confidence: 99%

A physiome standards-based model publication paradigm

Nickerson

Buist

2009

Phil. Trans. R. Soc. A.

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In this era of widespread broadband Internet penetration and powerful Web browsers on most desktops, a shift in the publication paradigm for physiome-style models is envisaged. No longer will model authors simply submit an essentially textural description of the development and behaviour of their model. Rather, they will submit a complete working implementation of the model encoded and annotated according to the various standards adopted by the physiome project, accompanied by a traditional humanreadable summary of the key scientific goals and outcomes of the work. While the final published, peer-reviewed article will look little different to the reader, in this new paradigm, both reviewers and readers will be able to interact with, use and extend the models in ways that are not currently possible. Here, we review recent developments that are laying the foundations for this new model publication paradigm. Initial developments have focused on the publication of mathematical models of cellular electrophysiology, using technology based on a CellML-or Systems Biology Markup Language (SBML)-encoded implementation of the mathematical models. Here, we review the current state of the art and what needs to be done before such a model publication becomes commonplace.

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Section: Large-scale Modelsmentioning

confidence: 99%