Go to the abstract in the NAR 2003 Database Issue.
 |
 |
|||||||
|
||||||||
http://genoplante-info.infobiogen.fr
Samson, D., Legeai, F., Karsenty, E., Reboux, S., Veyrieras, J.-B., Just, J., Barillot, E.
Génoplante-Info, Unité de Recherche Génomique-Info, INRA Infobiogen 523 place des terrasses F-91000 Evry France
Contact manu@infobiogen.fr
Génoplante is a collaboration between public French institutes (INRA, CIRAD, IRD and CNRS) and private companies (Biogemma, Bayer CropScience and Bioplante) that aims at developing genome analysis programs for crop species (corn, wheat, rapeseed, sunflower and pea) and model plants (Arabidopsis thaliana and rice). The outputs of these programs form a wealth of information (genomic sequence, transcriptome, proteome, allelic variability, mapping and synteny, mutation data) and tools (databases, interfaces, analysis software), that are being integrated and made public at the public bioinformatics resource centre of Génoplante: GénoPlante-Info (GPI). This continuous flood of data and tools is regularly updated and will grow continuously during the next two years. Access to the GPI databases and tools is offered at http://genoplante-info.infobiogen.fr/.
This work is supported by the Génoplante program. We thank Benjamin Preciado and the Infobiogen team (Guy Vaysseix, Francis Capy, François Laissus, Didier Gillet, Xavier Benigni, Jean-Marc Plaza and Claire Valencien) for their support in system and network administration, and in public data and software installation and maintenance. We are very grateful to our Génoplante colleagues for the submission of their data and/or tools to GPI, their participation in many bioinformatics meetings and task forces, and for their help in defining and enriching the GPI environment. In particular we would like to express our gratitude towards Johann Joets, Nicolas Sajot, Philippe Lessard, Philippe Dufour, Philippe Leroy, Olivier Gigonzac, Evelyne James, Denis Scala, Virginie Chataigner, Pierre Rouzé, Pierre Hilson, Vincent Thareau, Véronique Brunaud, Franck Samson, Sébastien Aubourg, Alain Lecharny, Ian Small, Michel Caboche, Jean-Loup Risler, Catherine Christophe and many others.
Samson, F., Brunaud, V., Balzergue, S., Dubreucq, B., Lepiniec, L.,
Pelletier, G., Caboche, M. and Lecharny, A. (2002) FLAGdb/FST : a
database of mapped flanking insertion sites (FSTs) of Arabidopsis
thaliana T-DNA transformants. Nucleic Acids Res., 30, 94-97.
Crowe, M., Serizet, C., Thareau, V., Aubourg, S., Rouzé, P. and Trick,
M. (2003) CATMA - A complete Arabidopsis GST database. Nucleic Acids
Res., 31, submitted to the database issue (NAR-00311-2002).
Schiex, T., Moisan, A. and Rouzé, P. (2001) EuGène : an eucaryotic gene
finder that combines several sources of evidence. Lecture Notes in
Computer Science, 2006, 111-125.
Pedersen, A. G. and Nielsen, H. (1997) Neural network prediction of
translation initiation sites in eukaryotes: perspectives for EST and
genome analysis. Proceedings of the Fifth International Conference on
Intelligent Systems for Molecular Biology, AAAI Press, Memlo Park,
California, 226-233.
Hebsgaard, S.M., Korning, P.G., Tolstrup, N., Engelbrecht, J., Rouzé, P.
and Brunak, S. (1996) Splice site prediction in Arabidopsis thaliana
DNA by combining local and global sequence information. Nucleic Acids
Res., 24, 3439-3452.
Brunak, S., Engelbrecht, J. and Knudsen, S. (1991) Prediction of Human
mRNA Donor and Acceptor Sites from the DNA Sequence. Journal of
Molecular Biology, 220, 49-65.
Kleffe, J., Hermann, K., Vahrson, W., Wittig, B. and Brendel, V. (1996)
Logitlinear models for the prediction of splice sites in plant pre-mRNA
sequences. Nucleic Acids Res., 24, 4709-4718.
Thareau, V., Déhais, P., Serizet, C., Hilson, P., Rouzé, P. and Aubourg,
S. (submitted to Genome Res.) Automatic design of specific gene sequence
tags for genome-wide functional studies.
Glémet, E. and Codani, JJ. (1997) LASSAP, a LArge Scale Sequence
compArison Package. Comput. Appl. Biosci., 13, 137-43.
Huang, X. and Madan, A. (1999) CAP3: A DNA sequence assembly program.
Genome Res., 9, 868-77.
Letondal, C. (2001) A Web interface generator for molecular biology
programs in Unix. Bioinformatics, 17, 73-82.
Category Genomic Databases
Go to the abstract in the NAR 2003 Database Issue.