Title: Exploring interaction measures to identify informative pairs of genes

Authors: Blaise Hanczar, Corneliu Henegar, Jean-Daniel Zucker

Addresses: LIPADE, University Paris Descartes, 45 rue des Saint-Peres, 75006 Paris, France. ' UPMC Univ Paris 06, UMRS 872, NUTRIOMIQUE, CRC, 75006, Paris, France. ' Institut de Recherche et Developpement IRD, UMI 209, UMMISCO, IRD France Nord, F-93143, Bondy, France

Abstract: Microarray experiments can be used for simultaneous expression of thousands of genes in various conditions. Data from these experiments are used to identify the gene involved in a particular biological phenomenon. Most current methods for such analysis assume that genes are independent. We explored the interaction between genes to identify informative gene pairs. This was based on measuring the interaction information using the information theory. We show that there are two kinds of gene interaction, redundancy and synergy. We analysed these interactions to construct a network of redundancy and conducted a functional analysis of synergic components on two public datasets.

Keywords: gene expression; microarray; gene network; interaction measures; mutual information; gene pairs; gene interaction; information theory.

DOI: 10.1504/IJBRA.2010.038743

International Journal of Bioinformatics Research and Applications, 2010 Vol.6 No.6, pp.628 - 642

Received: 12 Apr 2010
Accepted: 09 Jul 2010

Published online: 24 Feb 2011 *

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