GeneFarm, structural and functional annotation of Arabidopsis gene and protein families by a network of experts.
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.
Aubourg
Sébastien
S
Unité de Recherche en Génomique Végétale (INRA/CNRS/UEVE) 2 Rue Gaston Crémieux, CP 5708, 91057 Evry Cedex, France. aubourg@evry.inra.fr
Brunaud
Véronique
V
Bruyère
Clémence
C
Cock
Mark
M
Cooke
Richard
R
Cottet
Annick
A
Couloux
Arnaud
A
Déhais
Patrice
P
Deléage
Gilbert
G
Duclert
Aymeric
A
Echeverria
Manuel
M
Eschbach
Aimée
A
Falconet
Denis
D
Filippi
Ghislain
G
Gaspin
Christine
C
Geourjon
Christophe
C
Grienenberger
Jean-Michel
JM
Houlné
Guy
G
Jamet
Elisabeth
E
Lechauve
Frédéric
F
Leleu
Olivier
O
Leroy
Philippe
P
Mache
Régis
R
Meyer
Christian
C
Nedjari
Hafed
H
Negrutiu
Ioan
I
Orsini
Valérie
V
Peyretaillade
Eric
E
Pommier
Cyril
C
Raes
Jeroen
J
Risler
Jean-Loup
JL
Rivière
Stéphane
S
Rombauts
Stéphane
S
Rouzé
Pierre
P
Schneider
Michel
M
Schwob
Philippe
P
Small
Ian
I
Soumayet-Kampetenga
Ghislain
G
Stankovski
Darko
D
Toffano
Claire
C
Tognolli
Michael
M
Caboche
Michel
M
Lecharny
Alain
A
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
D029681:Arabidopsis Proteins