Method
Annotating genomes with massive-scale RNA sequencing
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* Corresponding author: Jean-Marc Aury jmaury@genoscope.cns.fr
- † Equal contributors
1 CEA, DSV, Institut de Génomique, Genoscope, 2 rue Gaston Crémieux, CP5706, 91057 Evry, France
2 CNRS, UMR 8030, 2 rue Gaston Crémieux, CP5706, 91057 Evry, France
3 Université d'Evry, 91057 Evry, France
4 Scientific and Technology Department, strada le Grazie 15, 37134 Verona, Italy
5 Istituto di Genomica Applicata, Parco Scientifico e Tecnologico di Udine, Via Linussio 51, 33100 Udine, Italy
6 CRIBI, Università degli Studi di Padova, viale G. Colombo, 35121 Padova, Italy
Genome Biology 2008, 9:R175 doi:10.1186/gb-2008-9-12-r175
Published: 16 December 2008Abstract
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.