DocumentCode :
2721519
Title :
3D visualization of concentrations from stochastic agent-based signal transduction simulations
Author :
Falk, Martin ; Klann, Michael ; Reuss, Matthias ; Ertl, Thomas
Author_Institution :
VISUS - Visualization Res. Center, Univ. Stuttgart, Stuttgart, Germany
fYear :
2010
fDate :
14-17 April 2010
Firstpage :
1301
Lastpage :
1304
Abstract :
Cellular signal transduction involves a transport step from the plasma membrane towards the nucleus, during which the signaling molecules are partly deactivated in control loops. This leads to a gradient in the concentration of active signaling molecules. The low number of molecules introduces spatio-temporal fluctuations and the asymmetric cellular architecture further increases the complexity. We propose a technique to represent this pattern in a continuous three-dimensional concentration map. The local concentration is computed and visualized with volume rendering techniques at interactive frame rates and is therefore well-suited for time-dependent data. Our approach allows the transition from the nano-scale of single and discrete signaling proteins to a continuous signal on the cell level. In the application context of this paper, we employ an agent-based Monte Carlo simulation to calculate the actual particle positions depending on reaction and transport parameters in the cell. The applicability of the proposed technique is demonstrated by an investigation of the effects of different transport parameters in Mitogen-activated protein kinase (MAPK) signaling.
Keywords :
Monte Carlo methods; biochemistry; biology computing; biomembrane transport; cellular biophysics; molecular biophysics; proteins; stochastic processes; 3D visualization; Mitogen-activated protein kinase signaling; active signaling molecule concentration; agent-based Monte Carlo simulation; cell nucleus; cellular signal transduction; discrete signaling proteins; plasma membrane; spatio-temporal fluctuations; stochastic agent-based signal transduction simulation; Biomembranes; Computational modeling; Computer architecture; Differential equations; Plasma properties; Plasma simulation; Proteins; Signal processing; Stochastic processes; Visualization; Cellular signal transduction; agent-based simulation; direct volume rendering; protein concentration; visualization;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Biomedical Imaging: From Nano to Macro, 2010 IEEE International Symposium on
Conference_Location :
Rotterdam
ISSN :
1945-7928
Print_ISBN :
978-1-4244-4125-9
Electronic_ISBN :
1945-7928
Type :
conf
DOI :
10.1109/ISBI.2010.5490235
Filename :
5490235
Link To Document :
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