Analyzing microarray data: a tool for annotations and grouping genes? - (Jun/12/2008 )

Hi,

I'm analyzing microarray data from yeast. We used to have geneSpring that can group genes (we find interesting) based on GO terms or function or some other specification. Is there a freely available tool that can do that?

R and the bioconductor - not a band, but a great language and set of tools for microarray analysis.

Enjoy.

Many free tools can do GO analysis such as this one http://burgundy.cmmt.ubc.ca/GOToolBox/

You can find more by googling with "gene ontology analysis".

To use these programs, you need to get a list of genes from your microarray data such as a list of genes downregulated by certain treatment and use the list as input, these programs will tell you what GO terms are over- or under-represented in the list. Different programs may need different gene identifiers, such as gene symbol, unigene id, refseq id, etc.