NDLI: Spatiotemporal simulation of a single living cell

Content Provider	IEEE Xplore Digital Library
Author	Yamaguchi, Y. Maruyama, T. Azuma, R. Konagaya, A.
Copyright Year	2005
Description	Author affiliation: Syst. & Inf. Eng., Tsukuba Univ., Ibaraki, Japan (Yamaguchi, Y.; Maruyama, T.)
Abstract	In the field of biology, many relationships among biological molecules have been unraveled during this decade by a number of experiments, which observe macroscopic temporal quantity changes of biological molecules in cells. Recent advances in experiments make it also possible to track the spatial movement of a single molecule in a living cell by adding fluorescent substance to the molecule. These progresses in experiments have pulled the trigger of demands for a spatiotemporal dynamic analysis in a living cell. However, the spatiotemporal analysis by biological experiments is still very difficult, and the powers of previous simulation systems are not enough for its simulation. In this paper, we propose an approach for the high-speed simulation, and a specialized system with one FPGA. In this system, biological molecules are described as particles which take random walk in three-dimensional discrete space, and two phase processing by reconfiguration is used in order to realize complex reactions among the molecules. The performance of the system is about 30 times of Pentium 4 3.2GHz.
Starting Page	267
Ending Page	274
File Size	440351
Page Count	8
File Format	PDF
ISBN	0780394070
DOI	10.1109/FPT.2005.1568557
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2005-12-11
Publisher Place	Singapore
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Spatiotemporal phenomena Cells (biology) Biological system modeling Computational modeling Hardware Lattices Analytical models Microscopy Systems engineering and theory Genomics
Content Type	Text
Resource Type	Article

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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