CGGA

CGGA (Co-expressed Gene Groups Analysis) [1–3] performs the extraction of bi-clusters of co-regulated genes from integrated gene expression data and gene annotations obtained from biological knowledge. First, the gene rank hierarchy is constructed using SAM F-Scores and then, the CGGA algorithm is applied to group of co-expressed genes.

Availibility

The software can be downloaded here.

1. Martinez R, Pasquier N, Pasquier C, Collard M, Lopez-Perez L: Analyse des groupes de gènes co-exprimés (AGGC): un outil automatique pour l’interprétation des expériences de biopuces. In 13ème rencontres de la société francophone de classification (sfc’06). Edited by Cépaduès Editions. Metz; 2006:267–276.

2. Martinez R, Pasquier N, Pasquier C, Lopez-Perez L: Interpreting microarray experiments via co-expressed gene groups analysis. In 9th international conference of discovery science (icds’06) lecture notes in computer science. Volume 4265. Barcelona: Springer Berlin Heidelberg; 2006:316–320.

3. Martinez R, Pasquier N, Pasquier C, Collard M, Lopez-Perez L: Analyse des groupes de gènes co-exprimés: un outil automatique pour l’interprétation des expériences de biopuces (version étendue). Revue des Nouvelles Technologies de l’Information (RNTI-C-2), Classification : points de vue croisés 2008, 831:263–74.