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PMID: 19087247 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Annotating genomes with massive-scale RNA sequencing.

Genome biology ·Vol. 9 ·No. 12 ·2008-00-00 ·Pages R175

Denoeud F, Aury JM, Da Silva C, Noel B, Rogier O, Delledonne M, Morgante M, Valle G, Wincker P, Scarpelli C, Jaillon O, Artiguenave F

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.

MeSH Terms
DNA, Complementary/genetics Genome, Plant Models, Genetic RNA, Plant/genetics Sequence Analysis, RNA/economics,methods Vitis/genetics
Chemicals
DNA, Complementary RNA, Plant
Authors & Affiliations
12 authors, click to expand affiliations / ORCID
Denoeud France
CEA, DSV, Institut de Génomique, Genoscope, 2 rue Gaston Crémieux, CP5706, 91057 Evry, France. [email protected]
Aury Jean-Marc
Da Silva Corinne
Noel Benjamin
Rogier Odile
Delledonne Massimo
Morgante Michele
Valle Giorgio
Wincker Patrick
Scarpelli Claude
Jaillon Olivier
Artiguenave François
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Article Info
Journal
Genome biology
Abbr.
Genome Biol
ISSN
1474-760X
DOI
10.1186/gb-2008-9-12-r175
Email
[email protected]
Published
2008-00-00
Epub
2008-00-16
Pages
R175
Language
English
Region
England
NLM ID
100960660
PMCID
PMC2646279
Subset
IM
External Links
PubMed source DOI: 10.1186/gb-2008-9-12-r175 PMC Full Text View journal details
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