Type I IFN innate immune response to adenovirus-mediated IFN-γ gene transfer contributes to the regression of cutaneous lymphomas
J. Clin. Invest. Mirjana Urosevic, et al. 117:2834 doi:10.1172/JCI32077 [Go to this article.]

Figure 3
Ingenuity pathway analysis (IPA) of functional associations between IFN-γ– and IL-2–associated gene networks after Ad-null (A and C) and Ad-IFN-γ infection (B and D). Each network is graphically displayed with genes/gene products as nodes (different shapes represent the functional classes of the gene products; see Node legend) and the biological relationships between the nodes as edges (lines). The length of an edge reflects the evidence in the literature supporting that node-to-node relationship. The intensity of the node color indicates the degree of up- (red) or downregulation (green) of the respective gene. IPA networks were generated as follows: Upon completed uploading of genes and corresponding fold-change expression values (done separately for Ad-IFN-γ and Ad-null differentially expressed genes), each gene identifier was mapped to its corresponding gene object in the IPA Knowledge Base (part of the IPA algorithm). Fold-change expression values were then used to identify genes whose expression was differentially regulated; these “focus genes” were overlaid onto a global molecular network contained in the IPA Knowledge Base. Networks of these focus genes were then algorithmically generated based on their connectivity and scored according to the number of focus genes within the network as well as according to the strength of their associations. We focused on IFNG- and IL-2–associated networks obtained after Ad-IFN-γ infection. To show the difference in genes expressed after infection with Ad-null, these networks were overlaid with Ad-null data. It is of note that the networks obtained after Ad-null infection lacked expression of several genes (white nodes) differentially regulated by Ad-IFN-γ.