Petascale dissipative particle dynamics simulations of biomedical microfluidic devices

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Title
Petascale dissipative particle dynamics simulations of biomedical microfluidic devices
Contributors
Tang, Yu-Hang (author)
Doi
10.7301/Z0FF3Q9F
Date Created
2016-07
Abstract
In this poster, we present the design and application of uDeviceX, a GPU-accelerated particle simulator for biomedical microfluidic devices. An improvement of up to 45X over competing state-of-the-art solvers was observed, thus establishing the frontiers of simulations of red blood cells by particle based methods. This is achieved by incorporating deep optimizations at the cluster-, node-, and kernel-level. Using uDeviceX, we performed simulations of blood and cancer cell separation in complex microfluidic channels with subcellular resolution, demonstrating unprecedented time to solution, performing at 65.5% of the peak performance of the Titan supercomputer. The computational setup emulates the conditions and the geometric complexity of microfluidic experiments and our results reproduce the experimental findings. These simulations provide submicron resolution while accessing time scales relevant to engineering designs. Our simulations redefine the role of computational science for the development of microfluidics - a technology that is becoming as important to medicine as integrated circuits have been to computers.
Keywords
High performance computing
Graphics processing units
Mesoscopic simulation
Erythrocytes
Notes
Funding: This work was supported by the Department of Energy Collaboratory on Mathematics for Mesoscopic Modeling of Materials (CM4). Simulations were carried out at the Oak Ridge Leadership Computing Facility through the INCITE program under project BIP102 and BIP118. YHT acknowledges partial financial support from an IBM Ph.D. Scholarship Award
Presented at: The Thirteenth International Conference for Mesoscopic Methods in Engineering and Science, Hamburg, Germany, 2016 July 18-22
Extent
1 poster
Access Conditions
This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License

Citation

Tang, Yu-Hang, "Petascale dissipative particle dynamics simulations of biomedical microfluidic devices" (2016). Research at Brown. Brown Digital Repository. Brown University Library. https://doi.org/10.7301/Z0FF3Q9F

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