In this study, we applied our system, ARepA (Automated Repository Acquisition), to three integrative “big data” analyses: an integration of gene networks in human prostate cancer to identify interactors with the NfκB pathway, a differential expression meta-analysis of genes and pathways up- or down-regulated in the germ-free murine colon, and an integrative analysis of heterogeneous data from three model microbes to identify differentially conserved peptide secretion system pathways. The gene discussed is NFKB1; the disease is Familial prostate cancer.