Qualitative analysis of the relation between DNA microarray data and behavioral models of regulation networks

Anne Siegel; Ovidiu Radulescu; Michel Le Borgne; Philippe Veber; Julien Ouy; Sandrine Lagarrigue

inria-00178809, version 1

Qualitative analysis of the relation between DNA microarray data and behavioral models of regulation networks

Anne Siegel ()^a^, 1, Ovidiu Radulescu ( Auteur à contacter de préférence ) ^1, 2, Michel Le Borgne ()^b^, 1, Philippe Veber^c^, 1, Julien Ouy^c^, 3, Sandrine Lagarrigue^d^, 4

Biosystems 84 (2006) 153-174

Résumé : We introduce a mathematical framework that allows to test the compatibility between differential data and knowledge on genetic and metabolic interactions. Within this framework a behavioral model is represented by a labeled oriented interaction graph; its predictions can be compared to experimental data. The comparison is qualitative and relies on a system of linear qualitative equations derived from the interaction graph. We show how to partially solve the qualitative system, how to identify incompatibilities between the model and the data, and how to detect competitions in the biological processes that are modeled. This approach can be used for the analysis of transcriptomic, metabolic or proteomic data.

a – CNRS
b – Université Rennes I
c – INRIA
d – Ecole Nationale Supérieure Agronomique de Rennes
1 : SYMBIOSE (INRIA - IRISA)
CNRS : UMR6074 – INRIA – Institut National des Sciences Appliquées (INSA) - Rennes – Université de Rennes 1
2 : Institut de Recherche Mathématique de Rennes (IRMAR)
CNRS : UMR6625 – Université de Rennes 1 – École normale supérieure de Cachan - ENS Cachan – Institut National des Sciences Appliquées (INSA) : - RENNES – Université de Rennes II - Haute Bretagne
3 : ESPRESSO (INRIA - IRISA)
CNRS : UMR6074 – INRIA – Institut National des Sciences Appliquées (INSA) - Rennes – Université de Rennes 1
4 : Génétique Animale (GARen)
Institut national de la recherche agronomique (INRA) : UMR598 – IFR140 – Ecole Nationale Supérieure Agronomique de Rennes – Agrocampus Ouest

inria-00178809, version 1
http://hal.inria.fr/inria-00178809
oai:hal.inria.fr:inria-00178809
Contributeur : Anne Siegel <>
Soumis le : Vendredi 12 Octobre 2007, 12:06:26
Dernière modification le : Mercredi 24 Mars 2010, 09:41:56

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