Efficient parallellization of stochastic simulation algorithm for chemically reacting systems on the graphics processing unit (2008)
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BibTeX
@TECHREPORT{Li08efficientparallellization,
author = {H. Li and L. Petzold},
title = {Efficient parallellization of stochastic simulation algorithm for chemically reacting systems on the graphics processing unit},
institution = {},
year = {2008}
}
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Abstract
Abstract: In biological systems formed by living cells, the small populations of some reactant species can result in inherent randomness which cannot be captured by traditional deterministic approaches. In that case, a more accurate simulation can be obtained by using the Stochastic Simulation Algorithm (SSA). Many stochastic realizations are required to capture accurate statistical information of the solution. This carries a very high computational cost. The current generation of graphics processing units (GPU) is well-suited to this task. We describe our implementation, and present some computational experiments illustrating the power of this technology for this important and challenging class of problems.
