Abstract
A microtubule gliding assay is a biological experiment observing the dynamics of microtubules driven by motor proteins fixed on a glass surface. When appropriate microtubule interactions are set up on gliding assay experiments, microtubules often organize and create higher-level dynamics such as ring and bundle structures. In order to reproduce such higher-level dynamics in silico, we have been focusing on making a real-time 3D microtubule simulation. This real-time 3D microtubule simulation enables us to gain more knowledge on microtubule dynamics and their swarm movements by means of adjusting simulation parameters in a real-time fashion. One of technical challenges when creating a real-time 3D simulation is balancing the 3D rendering and the computing performance. GPU programming plays an essential role in balancing the millions of tasks, and makes this real-time 3D simulation possible. By the use of GPGPU programming we are able to run the simulation in a massively parallel fashion, even when dealing with more complex interactions between microtubules such as overriding and snuggling.
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Gutmann, G., Inoue, D., Kakugo, A., Konagaya, A. (2014). Real-Time 3D Microtubule Gliding Simulation. In: Ma, S., Jia, L., Li, X., Wang, L., Zhou, H., Sun, X. (eds) Life System Modeling and Simulation. ICSEE LSMS 2014 2014. Communications in Computer and Information Science, vol 461. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-662-45283-7_2
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DOI: https://doi.org/10.1007/978-3-662-45283-7_2
Publisher Name: Springer, Berlin, Heidelberg
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