Hello! I am working on a data set using C-difficile two-color microarrays and would like to do some pathway analysis. KEGG has quite a number of pathways for this organism (see http://www.genome.jp/kegg- bin/show_organism?menu_type=pathway_maps&org=cdf), but when I tried to access them with KEGG.db (version 2.4.5, R 2.12.0) I had no success, e.g. if I type "KEGGPATHID2EXTID$hsa00010" I do get a list of genes present in the human Glycolysis / Gluconeogenesis pathway but typing "KEGGPATHID2EXTID$cdf00010" doesn't produce any output for the corresponding C-difficile pathway (though both of them are present in KEGG). For a single small pathway I could of course create a list with gene ids per hand by copying the gene list from KEGG, but of course it would be more convenient if I could do this automatically with Bioconductor. Has any of you clever people worked with C-difficile arrays and performed pathway analysis on them? And if so, how did you do it? Thanks Claus