Figure 3

Heat map based on genes derived from Student T test (p < 0.01) between permissive and not permissive cell lines using in house database and external database. A, B) Heat maps based on 371 genes derived from Student's T test: comparison between the heat map obtained using our dataset (A) and an independent dataset derived from Genomics and bioinformatics groups, LMP, CCR, National Cancer Institute, Bethesda, MD (B). IPA based on the 317 differentially expressed genes (derived from Student's T test p < 0.01) with functional annotations, constructed a primary network centered on NF-KB signaling (C) and a second ranking network centered on TGF-β and Interferon-α/β signaling (D) where genes up-regulated or down-regulated in higher permissive cell lines are respectively indicated in red and green. E) A canonical pathway analysis related to assembly of the RNA polymerase II complex also showed a down-regulation of this pathway in higher permissive cell lines.