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Svetoslav Nikolow, Bulgaria (in cooperation with WELISA)
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Koichi Takahashi, Japan
| What | Invited talk |
|---|---|
| When |
2010-10-18 from 09:00 to 10:00 |
| Where | Fraunhofer IGD Rostock, Joachim-Jungius-Str., Room 114 |
| Contact Name | Koichi Takahashi |
| Contact Email | ktakahashi@riken.jp |
| Contact Phone | +81-45-503-9270 |
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Particle reaction-diffusion simulations of cellular signaling pathways
The advent of advanced laser microscopy produced the pressing computational need to precisely model cellular biochemistry with molecular details. We have been developing high-performance particle reaction-diffusion simulation methods including the enhanced Greens Function Reaction Dynamics (eGFRD) and a microscopic lattice reaction-diffusion method called Spatiocyte. Together with some visualization, data analysis and rule-based modeling software components, these simulation methods are being implemented on our cellular simulation platform called E-Cell System Version 4. In addition to such computational aspects of our projects, I will also talk about an application of the eGFRD simulation method on a dual phosphorylation cycle of mitogen-activated protein kinase (MAPK) and the use of the Spatiocyte method to reveal self-organization mechanisms underlying cellular signaling systems.
Koichi Takahashi
Laboratory for Biochemical Simulation
Planning Office for the Center for Computational and Quantitative Life
Science
RIKEN
First Prize at the Second International Biomodellling Competition Dagstuhl 2011