Not sure if I have mis-understood. It looks like GAGE can be used for non-model organisms using KO?
I have a set of data - gene IDs with associated kegg Ids from using KAAS for my genome.
gene30651 K01416 ……...
I used this to match keggIDs with my set of differentially expressed genes I previously identified with their average fold change between control and treatment groups for each gene.
Is it possible to use this list of differentially expressed KEGG Ids to do pathway enrichment using GAGE and KO db?
geneID keggID FC
gene40167 k00236 43 …………….