Rule-based modeling of transcriptional ...
Type de document :
Article dans une revue scientifique
Titre :
Rule-based modeling of transcriptional attenuation at the tryptophan operon
Auteur(s) :
Kuttler, Celine [Auteur correspondant]
Institut de Recherche Interdisciplinaire [Villeneuve d'Ascq] [IRI]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Programming Languages for Biological Modeling and Simulation [BioComputing]
Lhoussaine, Cedric [Auteur]
Institut de Recherche Interdisciplinaire [Villeneuve d'Ascq] [IRI]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Programming Languages for Biological Modeling and Simulation [BioComputing]
Nebut, Mirabelle [Auteur]
Institut de Recherche Interdisciplinaire [Villeneuve d'Ascq] [IRI]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Programming Languages for Biological Modeling and Simulation [BioComputing]
Institut de Recherche Interdisciplinaire [Villeneuve d'Ascq] [IRI]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Programming Languages for Biological Modeling and Simulation [BioComputing]
Lhoussaine, Cedric [Auteur]
Institut de Recherche Interdisciplinaire [Villeneuve d'Ascq] [IRI]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Programming Languages for Biological Modeling and Simulation [BioComputing]
Nebut, Mirabelle [Auteur]
Institut de Recherche Interdisciplinaire [Villeneuve d'Ascq] [IRI]
Laboratoire d'Informatique Fondamentale de Lille [LIFL]
Programming Languages for Biological Modeling and Simulation [BioComputing]
Titre de la revue :
Transactions on Computational Systems Biology
Pagination :
199-228
Éditeur :
Springer
Date de publication :
2010-01-09
Discipline(s) HAL :
Informatique [cs]/Modélisation et simulation
Résumé en anglais : [en]
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 ...
Lire la suite >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. Object-centered languages based on the pi-calculus would yield less intelligible models. Such languages are confined to binary interactions, whereas our model heavily relies on reaction rules with more than two reactants, in order to concisely capture the control of attenuation.Lire moins >
Lire la suite >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. Object-centered languages based on the pi-calculus would yield less intelligible models. Such languages are confined to binary interactions, whereas our model heavily relies on reaction rules with more than two reactants, in order to concisely capture the control of attenuation.Lire moins >
Langue :
Anglais
Comité de lecture :
Oui
Audience :
Internationale
Vulgarisation :
Non
Commentaire :
LNBI 5945
Collections :
Source :
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