Annotating genomes with massive-scale RNA sequencing.
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.
Denoeud
France
F
CEA, DSV, Institut de Génomique, Genoscope, 2 rue Gaston Crémieux, CP5706, 91057 Evry, France. fdenoeud@genoscope.cns.fr
Aury
Jean-Marc
JM
Da Silva
Corinne
C
Noel
Benjamin
B
Rogier
Odile
O
Delledonne
Massimo
M
Morgante
Michele
M
Valle
Giorgio
G
Wincker
Patrick
P
Scarpelli
Claude
C
Jaillon
Olivier
O
Artiguenave
François
F
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*
D018076:DNA, Complementary; D018749:RNA, Plant