Satya Arjunan

Background

I am a PhD candidate supported by the Japanese Government (Monbukagakusho) scholarship at the Institute for Advanced Biosciences, Keio University. In the past, I have worked on protein secondary structure prediction and distributed parallel computing. I completed my MSc in Computer Science and BEng in Electronics Engineering at Universiti Teknologi Malaysia.

Currently I work on multicompartmental spatiotemporal stochastic simulation algorithm with applications in molecular systems biology. My advisor is Masaru Tomita. I am also a member of the E-Cell Project.

Tech

OpenPolity.Org: Aggregating ideas from everyday Malaysians.

Journal Publications

• Arjunan, S. N. V. and Tomita, M. (2009). A new multicompartmental reaction-diffusion modeling method links transient membrane attachment of E. coli MinE to E-ring formation. Systems and Synthetic Biology. In press.
• Arjunan, S. N. V. and Tomita, M. (2009). Modeling reaction-diffusion of molecules on surface and in volume spaces with the E-Cell System. International Journal of Computer Science and Information Security. 3(1):211–216.
• Yeo, Z. X., Wong, S. T., Arjunan, S. N. V., Piras, V., Tomita, M., Selvarajoo, K., Giuliani, A. and Tsuchiya, M. (2007). Sequential Logic Model Deciphers Dynamic Transcriptional Control of Gene Expressions. PLoS ONE 2(8): e776.
• Takahashi, K., Arjunan, S. N. V. and Tomita, M. (2005). Space in systems biology of signaling pathways – towards intracellular molecular crowding in silico. FEBS Letters 579(8): 1783-1788.

Books and Book Chapters

• Selvarajoo, K., Arjunan, S. N. V. and Tomita, M. (2009). In silico models for metabolic 'systems' engineering. In: The Metabolic Pathway Engineering Handbook: Tools and Applications, Smolke, C. D., Palsson, B. and Lee, S. Y. (editors). CRC Press (Boca Raton, FL).
• Arjunan, S. N. V., Dhar, P. K. and Tomita, M. (editors). E-Cell System: Basic Concepts and Applications. Landes Bioscience (Georgetown, Texas) and Springer Science+Business Media (New York, N. Y.). In press.

Conferences

• Arjunan, S. N. V. and Tomita, M. A 3D pole-to-pole oscillation model of MinD spiral formation on growing Escherichia coli membrane. Seventh International Conference on Systems Biology (ICSB 2006), Yokohama, Japan.
• Arjunan, S. N. V., Kratz, A. and Tomita, M. 3D Monte Carlo stochastic simulation of bacterial division site placement on a graphics processing unit is significantly faster than conventional CPU implementation. Seventh International Conference on Systems Biology (ICSB 2006), Yokohama, Japan.
• Arjunan, S. N. V., Yeo, Z. X., Tomita, M. and Tsuchiya, M. Cellogica: A tool to analyze and control the dynamics of cis-regulatory systems. Seventh International Conference on Systems Biology (ICSB 2006), Yokohama, Japan.
• Arjunan, S. N. V. and Selvarajoo, K. Factoring glucokinase sequestration in silico affects glycolytic network kinetics. Seventh International Conference on Systems Biology (ICSB 2006), Yokohama, Japan.
• Arjunan, S. N. V., Takahashi, K. and Tomita, M. (Nov 2003). Shared-Memory Multiprocessing of Gillespie's Stochastic Simulation Algorithm on E-Cell 3. Fourth International Conference on Systems Biology (ICSB 2003), St. Louis, USA.
• Takahashi, K., Sakurada, T., Kaizu, K., Kitayama, T., Arjunan, S. N. V., Ishida, T., Bereczki, G., Ito, D., Sugimoto, M., Komori, T., Seiji, O. and Tomita, M. (2003). E-Cell System Version 3: A Software Platform for Integrative Computational Biology. In Genome Informatics 2003, M. Gribskov, M. Kanehisa, S. Miyano, and T. Takagi (editors). Universal Academy Press, Tokyo. Pages: 294-295

Talks

• Arjunan, S. N. V. (March 2005). Mesoscale Simulation Approaches in Systems Biology: Recent Advances and Future Directions. Workshop on Particle Methods and Mesoscale Simulation of Liquids, Warrington, U. K.

Contact

Satya Nanda Vel Arjunan
satya.arjunan@[].com [gmail]
+81-235-29-0800 (phone)
+81-235-29-0809 (fax)
Institute for Advanced Biosciences
Keio University
14-1, Baba-cho, Tsuruoka
Yamagata, 997-0035 Japan

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