Satya Arjunan

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I completed my PhD in Systems Biology at the [http://www.iab.keio.ac.jp/ Institute for Advanced Biosciences], Keio University in 2009. My thesis can be found [http://openwetware.org/images/b/bc/2009.arjunan.keio.pdf here]. I developed a multicompartmental spatiotemporal stochastic simulation algorithm, called Spatiocyte, with applications in bacterial division site placement control. I am also a member of the [http://www.e-cell.org/ E-Cell Project]. 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.
I completed my PhD in Systems Biology at the [http://www.iab.keio.ac.jp/ Institute for Advanced Biosciences], Keio University in 2009. My thesis can be found [http://openwetware.org/images/b/bc/2009.arjunan.keio.pdf here]. I developed a multicompartmental spatiotemporal stochastic simulation algorithm, called Spatiocyte, with applications in bacterial division site placement control. I am also a member of the [http://www.e-cell.org/ E-Cell Project]. 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.
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Currently I am a postdoc at the RIKEN Yokohama Institute, Japan.
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Currently I am a postdoc at the RIKEN Quantitative Biology Center in Osaka, Japan.
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My Google Scholar [http://scholar.google.com/citations?user=FGHQqjkAAAAJ&hl=en page]. 
==Journal Publications==
==Journal Publications==
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*Arjunan, S. N. V. and Tomita, M. (2009). [http://www.springerlink.com/content/438375471t332vx6 A new multicompartmental reaction-diffusion modeling method links transient membrane attachment of E. coli MinE to E-ring formation]. Systems and Synthetic Biology. [http://openwetware.org/images/6/6b/2009.arjunan.syst.synth.biol.pdf Published online].
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*Arjunan, S. N. V. and Tomita, M. (2010). [http://www.springerlink.com/content/438375471t332vx6 A new multicompartmental reaction-diffusion modeling method links transient membrane attachment of E. coli MinE to E-ring formation]. Systems and Synthetic Biology 4(1): 35-53 [http://openwetware.org/images/6/6b/2009.arjunan.syst.synth.biol.pdf Published online].
*Arjunan, S. N. V. and Tomita, M. (2009). [http://precedings.nature.com/documents/3526/version/1 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.
*Arjunan, S. N. V. and Tomita, M. (2009). [http://precedings.nature.com/documents/3526/version/1 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). [http://www.plosone.org/article/fetchArticle.action?articleURI=info%3Adoi%2F10.1371%2Fjournal.pone.0000776 Sequential Logic Model Deciphers Dynamic Transcriptional Control of Gene Expressions]. PLoS ONE 2(8): e776.
*Yeo, Z. X., Wong, S. T., Arjunan, S. N. V., Piras, V., Tomita, M., Selvarajoo, K., Giuliani, A. and Tsuchiya, M. (2007). [http://www.plosone.org/article/fetchArticle.action?articleURI=info%3Adoi%2F10.1371%2Fjournal.pone.0000776 Sequential Logic Model Deciphers Dynamic Transcriptional Control of Gene Expressions]. PLoS ONE 2(8): e776.
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Satya Nanda Vel Arjunan <br>
Satya Nanda Vel Arjunan <br>
satya.arjunan@[].com [gmail] <br>
satya.arjunan@[].com [gmail] <br>
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+81-235-29-0800 (phone) <br>
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RIKEN Quantitative Biology Center <br>
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+81-235-29-0809 (fax) <br>
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OLABB, Osaka University <br>
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Institute for Advanced Biosciences <br>
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6-2-3, Furuedai, Suita <br>
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Keio University <br>
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Osaka 565-0874, JAPAN <br>
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14-1, Baba-cho, Tsuruoka <br>
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Phone: +81-6-6155-0111 <br>
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Yamagata, 997-0035 Japan <br>
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http://www.qbic.riken.jp/english/index.html
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Revision as of 18:54, 19 November 2011

Image:satya.arjunan.png


Contents

Background

I completed my PhD in Systems Biology at the Institute for Advanced Biosciences, Keio University in 2009. My thesis can be found here. I developed a multicompartmental spatiotemporal stochastic simulation algorithm, called Spatiocyte, with applications in bacterial division site placement control. I am also a member of the E-Cell Project. 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 am a postdoc at the RIKEN Quantitative Biology Center in Osaka, Japan. My Google Scholar page.

Journal Publications

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]
RIKEN Quantitative Biology Center
OLABB, Osaka University
6-2-3, Furuedai, Suita
Osaka 565-0874, JAPAN
Phone: +81-6-6155-0111
http://www.qbic.riken.jp/english/index.html

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