title: GeneFarm, structural and functional annotation of Arabidopsis gene and protein families by a network of experts.
abstract: Genomic projects heavily depend on genome annotations and are limited by the current deficiencies in the published predictions of gene structure and function. It follows that, improved annotation will allow better data mining of genomes, and more secure planning and design of experiments. The purpose of the GeneFarm project is to obtain homogeneous, reliable, documented and traceable annotations for Arabidopsis nuclear genes and gene products, and to enter them into an added-value database. This re-annotation project is being performed exhaustively on every member of each gene family. Performing a family-wide annotation makes the task easier and more efficient than a gene-by-gene approach since many features obtained for one gene can be extrapolated to some or all the other genes of a family. A complete annotation procedure based on the most efficient prediction tools available is being used by 16 partner laboratories, each contributing annotated families from its field of expertise. A database, named GeneFarm, and an associated user-friendly interface to query the annotations have been developed. More than 3000 genes distributed over 300 families have been annotated and are available at http://genoplante-info.infobiogen.fr/Genefarm/. Furthermore, collaboration with the Swiss Institute of Bioinformatics is underway to integrate the GeneFarm data into the protein knowledgebase Swiss-Prot.
authors.affiliation: Unité de Recherche en Génomique Végétale (INRA/CNRS/UEVE) 2 Rue Gaston Crémieux, CP 5708, 91057 Evry Cedex, France. aubourg@evry.inra.fr
authors.forename: Sébastien
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authors.lastname: Aubourg
authors.forename: Véronique
authors.initials: V
authors.lastname: Brunaud
authors.forename: Clémence
authors.initials: C
authors.lastname: Bruyère
authors.forename: Mark
authors.initials: M
authors.lastname: Cock
authors.forename: Richard
authors.initials: R
authors.lastname: Cooke
authors.forename: Annick
authors.initials: A
authors.lastname: Cottet
authors.forename: Arnaud
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authors.lastname: Couloux
authors.forename: Patrice
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authors.lastname: Déhais
authors.forename: Gilbert
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authors.lastname: Deléage
authors.forename: Aymeric
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authors.lastname: Duclert
authors.forename: Manuel
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authors.lastname: Echeverria
authors.forename: Aimée
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authors.lastname: Eschbach
authors.forename: Denis
authors.initials: D
authors.lastname: Falconet
authors.forename: Ghislain
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authors.lastname: Filippi
authors.forename: Christine
authors.initials: C
authors.lastname: Gaspin
authors.forename: Christophe
authors.initials: C
authors.lastname: Geourjon
authors.forename: Jean-Michel
authors.initials: JM
authors.lastname: Grienenberger
authors.forename: Guy
authors.initials: G
authors.lastname: Houlné
authors.forename: Elisabeth
authors.initials: E
authors.lastname: Jamet
authors.forename: Frédéric
authors.initials: F
authors.lastname: Lechauve
authors.forename: Olivier
authors.initials: O
authors.lastname: Leleu
authors.forename: Philippe
authors.initials: P
authors.lastname: Leroy
authors.forename: Régis
authors.initials: R
authors.lastname: Mache
authors.forename: Christian
authors.initials: C
authors.lastname: Meyer
authors.forename: Hafed
authors.initials: H
authors.lastname: Nedjari
authors.forename: Ioan
authors.initials: I
authors.lastname: Negrutiu
authors.forename: Valérie
authors.initials: V
authors.lastname: Orsini
authors.forename: Eric
authors.initials: E
authors.lastname: Peyretaillade
authors.forename: Cyril
authors.initials: C
authors.lastname: Pommier
authors.forename: Jeroen
authors.initials: J
authors.lastname: Raes
authors.forename: Jean-Loup
authors.initials: JL
authors.lastname: Risler
authors.forename: Stéphane
authors.initials: S
authors.lastname: Rivière
authors.forename: Stéphane
authors.initials: S
authors.lastname: Rombauts
authors.forename: Pierre
authors.initials: P
authors.lastname: Rouzé
authors.forename: Michel
authors.initials: M
authors.lastname: Schneider
authors.forename: Philippe
authors.initials: P
authors.lastname: Schwob
authors.forename: Ian
authors.initials: I
authors.lastname: Small
authors.forename: Ghislain
authors.initials: G
authors.lastname: Soumayet-Kampetenga
authors.forename: Darko
authors.initials: D
authors.lastname: Stankovski
authors.forename: Claire
authors.initials: C
authors.lastname: Toffano
authors.forename: Michael
authors.initials: M
authors.lastname: Tognolli
authors.forename: Michel
authors.initials: M
authors.lastname: Caboche
authors.forename: Alain
authors.initials: A
authors.lastname: Lecharny
mesh_terms: D017360:Arabidopsis / Q000235:genetics*; D029681:Arabidopsis Proteins / Q000737:chemistry / Q000235:genetics* / Q000502:physiology; D030541:Databases, Genetic; D017343:Genes, Plant; D010684:Philosophy; D018511:Systems Integration; D014584:User-Computer Interface
chemical_list: D029681:Arabidopsis Proteins