Computational Analysis of Large-Scale Multi-affine ODE Models

Lubos Brim, Jiri Barnat, Ivana Cerna, Sven Drazan, Jana Fabrikova, David Safranek
<span title="">2009</span> <i title="IEEE"> 2009 International Workshop on High Performance Computational Systems Biology </i> &nbsp;
A biological system as considered in systems biology is understood in the form of a network of interactions among individual biochemical species. Complexity of these networks is inherently enormous, even for simple (e.g., procaryotic) organisms. When modeling and analyzing dynamics of these networks, i.e., exploring how the species evolve in time, we have to fight even another level of complexity -the enormous state space. In this paper we deal with a class of biological models that can be
more &raquo; ... ibed in terms of multi-affine dynamic systems. First, we present a prototype tool for parallel (distributed) analysis of multi-affine systems discretized into rectangles that adapts the approach of Belta [1], [2] . Secondly, we propose heuristics that significantly increase applicability of the approach to large biological models. Effects of different settings of the heuristics is firstly compared on a set of experiments performed on small models. Subsequently, experiments on large models are provided as well.
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="">doi:10.1109/hibi.2009.14</a> <a target="_blank" rel="external noopener" href="">fatcat:opqtc34plzbzfnkgmlctk7ywva</a> </span>
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