Klann, M. ; Ganguly, A. ; Koeppl, H. (2011)
Improved Reaction Scheme for Spatial Stochastic Simulations with Single Molecule Detail.
Eighth International Workshop on Computational Systems Biology (WCSB 2011).
Konferenzveröffentlichung, Bibliographie
Kurzbeschreibung (Abstract)
We present an improved spatial simulation method to model intracellular reactions in detail. It combines the efficiency of the Gillespie algorithm for first order reactions with the spatial detail of particle tracking in molecule positions and bimolecular reactions. Bimolecular reactions depend on the collision of two molecules, but the time of a first order (e.g. decay) event can be pre-calculated at the time when the molecule is created. We applied this method to study the effect of scaffolds in MAPK signaling. Scaffolds co-localize the molecules of the signaling cascade and thus control the output of the signaling module.
| Typ des Eintrags: | Konferenzveröffentlichung |
|---|---|
| Erschienen: | 2011 |
| Autor(en): | Klann, M. ; Ganguly, A. ; Koeppl, H. |
| Art des Eintrags: | Bibliographie |
| Titel: | Improved Reaction Scheme for Spatial Stochastic Simulations with Single Molecule Detail |
| Sprache: | Englisch |
| Publikationsjahr: | 2011 |
| Ort: | Tampere |
| Verlag: | Tampere University of Technology |
| Band einer Reihe: | 57 |
| Veranstaltungstitel: | Eighth International Workshop on Computational Systems Biology (WCSB 2011) |
| URL / URN: | http://www.wcsb2011.ethz.ch/programme |
| Zugehörige Links: | |
| Kurzbeschreibung (Abstract): | We present an improved spatial simulation method to model intracellular reactions in detail. It combines the efficiency of the Gillespie algorithm for first order reactions with the spatial detail of particle tracking in molecule positions and bimolecular reactions. Bimolecular reactions depend on the collision of two molecules, but the time of a first order (e.g. decay) event can be pre-calculated at the time when the molecule is created. We applied this method to study the effect of scaffolds in MAPK signaling. Scaffolds co-localize the molecules of the signaling cascade and thus control the output of the signaling module. |
| Fachbereich(e)/-gebiet(e): | 18 Fachbereich Elektrotechnik und Informationstechnik 18 Fachbereich Elektrotechnik und Informationstechnik > Institut für Nachrichtentechnik > Bioinspirierte Kommunikationssysteme 18 Fachbereich Elektrotechnik und Informationstechnik > Institut für Nachrichtentechnik |
| Hinterlegungsdatum: | 04 Apr 2014 12:52 |
| Letzte Änderung: | 23 Sep 2021 14:32 |
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