To investigate transcriptional regulation underlying early and late perturbations of cellular processes associated with prion diseases, we built TRN describing regulations for EU, LU, and DN genes by 467 TFs (Additional file 1: Figure S2A) based on TF-target interactions in MetaCoreTM (ver 6.7) and Ingenuity Pathway Analysis (IPA). The gene discussed is TF; the disease is prion disease.