Interactively exploring distributed computational models of biology

Watson, James and Wiles, Janet (2007). Interactively exploring distributed computational models of biology. In: The 8th Asia-Pacific Complex Systems Conference: COMPLEX 07. Handbook & Abstracts. Complex 07: 8th Asia-Pacific Complex Systems Conference, Gold Coast, QLD, Australia, (). 2-5 July, 2007.

Author Watson, James
Wiles, Janet
Title of paper Interactively exploring distributed computational models of biology
Conference name Complex 07: 8th Asia-Pacific Complex Systems Conference
Conference location Gold Coast, QLD, Australia
Conference dates 2-5 July, 2007
Proceedings title The 8th Asia-Pacific Complex Systems Conference: COMPLEX 07. Handbook & Abstracts
Place of Publication Canberra, ACT, Australia
Publisher COSNet
Publication Year 2007
Sub-type Published abstract
Open Access Status
Language eng
Formatted Abstract/Summary
Interaction with a running computational model is a powerful way to gain insight into its dynamics. Two key advantages that interactive simulations have over batch simulations are: (1) user exploration facilitates understanding of model behaviour under various conditions, and (2) the researcher can quickly hone in on points of interest by dynamically prioritizing computations according to those regions.

However, interaction with a computational model depends on the responsiveness of that model. This paper describes software that provides an interactive interface to a computationally intensive simulation. Computation is initiated by user actions, and distributed to idle machines. Results are displayed as they are returned. Also, an algorithm that aids prioritization of computation according to interesting regions of the results is presented.

This approach has proven useful in modeling genetic regulatory networks for two reasons. First, in this domain the simulation can be easily divided into distinct units of work. The computing requirements for each work unit are small, but simulations are comprised of many of these work units. Second, some regions of parameter space are more interesting than others, so dynamically choosing where to spend computing resources is advantageous.
Q-Index Code EX
Q-Index Status Provisional Code
Institutional Status UQ

Document type: Conference Paper
Collection: Queensland Alliance for Agriculture and Food Innovation
 
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Created: Tue, 10 Mar 2015, 16:48:07 EST by James Watson on behalf of Centre for Plant Science