1. Ingenuity, WebGestalt, GSEA, KEGG, Reactome, Pathway Commons (via WebGestalt), String (for KEGG/Reactome)
2. Not described
3. MSigDB, Ingenuity Canonical Pathways, Pathway Commons, KEGG, Reactome
4. Yes (all 16k probes on array)
5. Fisher’s exact test (Ingenuity), hypergeometric test (WebGestalt)
6. Yes