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| HAL : hal-00445565, version 1 |
| Fiche détaillée |  Récupérer au format |
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| Winter Simulation Conference, Austin, Texas, USA : États-Unis (2009) |
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| Rule-based modeling of transcriptional attenuation at the tryptophan operon |
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Celine Kuttler 1, 2, 3Cédric Lhoussaine 1, 2, 3 |
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| (13/12/2009) |
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| Transcriptional attenuation at E.coli's tryptophan operon is a prime example of RNA-mediated gene regulation. In this paper, we present a discrete stochastic model of the fine-grained control of attenuation, based on chemical reactions. Stochastic simulation of our model confirms results that were previously obtained by master or differential equations. Our approach is easier to understand than master equations, although mathematically well founded. It is compact due to rule schemas that define finite sets of chemical reactions. Moreover, our model makes intense use of reaction rules with more than two reactants. As we show, such n-ary rules are essential to concisely capture the control of attenuation. Our model could not adequately be represented in object-centered modeling languages based on the pi-calculus, because these are limited to binary interactions. |
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| 1 : | Institut de Recherche Interdisciplinaire (IRI) |
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CNRS : USR3078 – Université Lille I - Sciences et technologies – Université Lille II - Droit et santé |
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| 2 : | Laboratoire d'Informatique Fondamentale de Lille (LIFL) |
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CNRS : UMR8022 – Université Lille I - Sciences et technologies – Université Lille III - Sciences humaines et sociales – INRIA |
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| 3 : | BIOCOMPUTING (LIFL) |
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Université Lille I - Sciences et technologies – CNRS : UMR8022 |
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| Domaine | : | Informatique/Modélisation et simulation Sciences du Vivant/Biologie cellulaire/Organisation et fonctions cellulaires |
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| Liste des fichiers attachés à ce document : | |||||
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| hal-00445565, version 1 | |
| http://hal.archives-ouvertes.fr/hal-00445565 | |
| oai:hal.archives-ouvertes.fr:hal-00445565 | |
| Contributeur : Hal Biocomputing | |
| Soumis le : Samedi 9 Janvier 2010, 20:17:15 | |
| Dernière modification le : Jeudi 17 Juin 2010, 14:36:35 | |
