Journée satellite – JOBIM 2007 Analyse statistique du transcriptome 9 juillet 2007

Analyse statistique du transcriptome Programme-2-Programme 09h30-10h00 Enregistrement 10h00-10h10 Ouverture de la journée 10h10-10h30 Evidence for a dual constraint on transcriptomes : both species-specific and tissue-specific gene expression pattern are intermingled – C. Keime, L. Duret, D. Mouchiroud, O. Gandrillon 10h30-10h50 ManGO : an interactive R-based tool for two-colour microarray analysis – L. 10h50-11h10 Pause café 11h10-11h30 Transcriptome annotation using tandem SAGE tags – E. Tentative mapping of transcription-induced interchromosomal interaction using chimeric EST and mRNA data – P. Unneberg, J.-M. Claverie 11h50-12h10 DBF-MCL a new algorithm for rapidly and accurately extracting cluster of co-regulated genes from microarray data – 12h10-14h00 Déjeuner à la cafétéria Euromed 14h00-14h20 Made4 : a software package for multivariate analysis of gene expression data – A.C. Culhane, J. Thioulouse, G. Perrière 14h20-14h40 Détection de la prise de stimulants de l'érythropoïèse via des changements de l'expression de gènes – D. Piquemal 14h40-15h00 MEDIAS : a KEGG pathway and Gene Ontology analysis system for large-scale gene expression data – Analyse statistique du transcriptome Programme-3-15h00-15h20 Pause café 15h20-15h40 IGOIM, une méthode d'inférence de réseaux génétiques utilisant l'information mutuelle – L. Brinza, F. Calevro, H. Charles 15h40-16h00 GenoScript: an integrated database for transcriptome data storage and analysis – 16h00-16h20 Discussion générale Analyse statistique du transcriptome Informations générales-4-Remerciements L'organisation de cette journée staellite à JOBIM 2007 n'aurait pas été possible sans le support des institutions suivantes: • Le Réseau National des Génopoles (RNG) • Le Réseau National des Plates-Formes en Bioinformatique (ReNaBi) Également, un grand merci à Alain Guénoche pour l'impression de ce programme. Analyse statistique du transcriptome Résumés-5-The amount to which transcriptomes are under evolutionary constraints is an emerging theme in genomic biology. Contradictory results have been obtained on this question: two studies have led to the proposal that gene expression divergence might be predominantly neutral, with expression differences accumulating approximately linearly with time (Yanai et al., 2004; Khaitovich et al., 2004). In contrast, other studies concluded that gene expression divergence is subject to purifying selective constraints (Jordan et al., 2005; Liao and Zhang 2006). All those studies were conducted using microarray data. However, such a comparison is affected by hybridization differences between species (Gilad et al., 2005). We therefore decided to compare transcriptome across species by using SAGE (Serial Analysis of Gene Expression; Velculescu et al., 1995) data, since those are ideally suited for interspecific comparative studies (Keime et al., 2004). We first defined, using publicly available data, a …