using GOToolBox for microarray data analysis

Bernard jacq at ibdm.univ-mrs.fr
Mon Jan 24 11:35:28 EST 2005



 Dear colleagues,


 This short mail to inform the community of researchers interested in 
microarrays 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).

 GOToolBox can be useful to analyse groups of genes derived from 
microarrays,Chromatin-Immunoprecipitations, from the analysis of 
protein-protein (two-hybrid), protein_DNA and/or genetic networks.

The programs from GOToolBox are directly accessible through a Web 
site described in the article.

 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


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