The use of Graphics Processing Units (GPUs) has recently witnessed ever growing applications for different computational analyses in the field of Life Sciences. In this work we present a CUDA-powered computational tool, named coagSODA, that was purposely developed and applied for the analysis of a large model of the blood coagulation cascade defined as a system of ordinary differential equations, based on both mass-action kinetics and Hill functions. We discuss the biological results of the parameter sweep analyses of this model, and show that GPUs can boost the computational performances up to 177× speedup.
Bellini, M., Besozzi, D., Cazzaniga, P., Mauri, G., Nobile, M. (2014). Simulation and Analysis of the Blood Coagulation Cascade Accelerated on GPU. In Proceedings - 2014 22nd Euromicro International Conference on Parallel, Distributed, and Network-Based Processing, PDP 2014 (pp.590-593). IEEE Press [10.1109/PDP.2014.52].
Simulation and Analysis of the Blood Coagulation Cascade Accelerated on GPU
BESOZZI, DANIELA;MAURI, GIANCARLO;NOBILE, MARCO SALVATORE
2014
Abstract
The use of Graphics Processing Units (GPUs) has recently witnessed ever growing applications for different computational analyses in the field of Life Sciences. In this work we present a CUDA-powered computational tool, named coagSODA, that was purposely developed and applied for the analysis of a large model of the blood coagulation cascade defined as a system of ordinary differential equations, based on both mass-action kinetics and Hill functions. We discuss the biological results of the parameter sweep analyses of this model, and show that GPUs can boost the computational performances up to 177× speedup.
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