Faculty Advisor

Tuzel, Erkan

Abstract

Fluorescence Recovery After Photobleaching (FRAP) is a commonly used technique in cell biology for the analysis of diffusion in cellular systems. In this project, we developed a 3D computational Brownian dynamics model of the diffusion and FRAP process in arbitrary cellular boundaries, using GPUs. The model organism used is the moss physcomitrella patens. The developed computational model is cross-platform and architecture independent, and uses data parallel Java with Aparapi OpenCL bindings, producing significantly faster runtimes compared to CPU. Finally, using this approach, we investigated the effects of cell shape, bleach location, and size during FRAP process, and our results show that the apparent diffusion coefficients are strongly influenced due to these geometric effects.

Publisher

Worcester Polytechnic Institute

Date Accepted

April 2016

Major

Computer Science

Major

Physics

Project Type

Major Qualifying Project

Accessibility

Unrestricted

Advisor Department

Physics

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