9.8 years ago by
Maastricht, The Netherlands
I suppose you have a specific reason to use InnateDb, so you are really mostly interested in innate immunity interactions and pathways? In that case is doesn't make much sense to go looking for a better pathway resource. If that is not the case you might want to look at this [?]other question asked today[?] where quite some pathway resources were mentioned.
You could try a standalone pathway statistics procedure on the InnateDb pathways, like a gene set enrichment analysis. But please be aware that your exact statistical procedure for pathway analysis actually is not that relevant. There are so many biological issues (like relevance of a gene to the pathway and the existence of iso-enzymes) that you can not draw strong conclusions from the order of the pathways showing up anyway. It is just a means to decide which pathways to study in more detail.