Pathway/GO Analysis

Within each study, for each disease and pathway/GO combination, we calculate the relative risk from a two-by-two contingency table:
# Genes In Pathway X Not in Pathway X
Regulated in Disease a b
Not Regulated in Disease c d

The regulation criteria are described in detail in the disease analysis section. After computing the relative risk, a z-score is calculated (RR / Std.Error RR), which is used to rank pathway/GO terms for their disease association.