Real-time 3D microtubule gliding simulation

Greg Gutmann, Daisuke Inoue, Akira Kakugo, Akihiko Konagaya

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)

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.

Original languageEnglish
Title of host publicationLife System Modeling and Simulation - International Conference on Life System Modeling and Simulation, LSMS 2014 and International Conference on Intelligent Computing for Sustainable Energy and Environment, ICSEE 2014, Proceedings
EditorsShiwei Ma, Li Jia, Xin Li, Ling Wang, Xin Sun, Huiyu Zhou
PublisherSpringer Verlag
Pages13-22
Number of pages10
ISBN (Electronic)9783662452820
DOIs
Publication statusPublished - Jan 1 2014
Externally publishedYes

Publication series

NameCommunications in Computer and Information Science
Volume461
ISSN (Print)1865-0929
ISSN (Electronic)1865-0937

All Science Journal Classification (ASJC) codes

  • Computer Science(all)
  • Mathematics(all)

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  • Cite this

    Gutmann, G., Inoue, D., Kakugo, A., & Konagaya, A. (2014). Real-time 3D microtubule gliding simulation. In S. Ma, L. Jia, X. Li, L. Wang, X. Sun, & H. Zhou (Eds.), Life System Modeling and Simulation - International Conference on Life System Modeling and Simulation, LSMS 2014 and International Conference on Intelligent Computing for Sustainable Energy and Environment, ICSEE 2014, Proceedings (pp. 13-22). (Communications in Computer and Information Science; Vol. 461). Springer Verlag. https://doi.org/10.1007/978-3-662-45283-7_2