title: Annotating genomes with massive-scale RNA sequencing.
abstract: Next generation technologies enable massive-scale cDNA sequencing (so-called RNA-Seq). Mainly because of the difficulty of aligning short reads on exon-exon junctions, no attempts have been made so far to use RNA-Seq for building gene models de novo, that is, in the absence of a set of known genes and/or splicing events. We present G-Mo.R-Se (Gene Modelling using RNA-Seq), an approach aimed at building gene models directly from RNA-Seq and demonstrate its utility on the grapevine genome.
authors.affiliation: CEA, DSV, Institut de Génomique, Genoscope, 2 rue Gaston Crémieux, CP5706, 91057 Evry, France. fdenoeud@genoscope.cns.fr
authors.forename: France
authors.initials: F
authors.lastname: Denoeud
authors.forename: Jean-Marc
authors.initials: JM
authors.lastname: Aury
authors.forename: Corinne
authors.initials: C
authors.lastname: Da Silva
authors.forename: Benjamin
authors.initials: B
authors.lastname: Noel
authors.forename: Odile
authors.initials: O
authors.lastname: Rogier
authors.forename: Massimo
authors.initials: M
authors.lastname: Delledonne
authors.forename: Michele
authors.initials: M
authors.lastname: Morgante
authors.forename: Giorgio
authors.initials: G
authors.lastname: Valle
authors.forename: Patrick
authors.initials: P
authors.lastname: Wincker
authors.forename: Claude
authors.initials: C
authors.lastname: Scarpelli
authors.forename: Olivier
authors.initials: O
authors.lastname: Jaillon
authors.forename: François
authors.initials: F
authors.lastname: Artiguenave
mesh_terms: D018076:DNA, Complementary / Q000235:genetics; D018745:Genome, Plant; D008957:Models, Genetic; D018749:RNA, Plant / Q000235:genetics; D017423:Sequence Analysis, RNA / Q000191:economics / Q000379:methods*; D027843:Vitis / Q000235:genetics*
chemical_list: D018076:DNA, Complementary; D018749:RNA, Plant