Dear colleagues,
This short mail to inform the community of people interested in the
development and use of biological software of the availability of
GOToolBox, a series of programs using Gene ontology that we published
recently in Genome biology
(http://www.biomedcentral.com/content/pdf/gb-2004-5-12-r101.pdf).
The programs from GOToolBox are directly accessible through a Web
site described in the article.
They can be useful to analyse groups of genes derived from
microarrays,Chromatin-Immunoprecipitations, from the analysis of
protein-protein, protein_DNA and/or genetic networks, ....
They ca therefore be of potential utility for functional annotations
of chromosomes.
GOToolBox performs five main tasks:
- gene dataset creation,
- selection and fitting of GO terms at a given ontology level (GO-Diet),
- statistical analysis of GO terms associated with gene sets
(GO-Stats) in order to find over- or under-represented terms,
- GO-based gene clustering (GO-Proxy) allowing to find sub-groups of
functionnally related genes within a gene set,
- gene retrieval based on GO annotation similarity (GO-Family) in
one or several species.
Other developments are presently on their way.
At the moment, GOToolBox supports analyses of GO terms for six species :
Yeast (Sc), Arabidopsis, Drosophila, nematode, mouse and humans.
For the authors,
David Martin and Bernard Jacq
Bernard Jacq
LGPD-IBDM
Parc Scientifique de luminy
13288 Marseille Cedex 9
tel (33) 04 91 82 94 25
fax (33) 04 91 82 06 82
Nous sauverons la recherche:
Signez et faites signer l'appel pour une loi de la recherche
conforme à l'esprit des EGR de Grenoble
http://recherche-en-danger.apinc.org/
---
