Fig. 2
IFN-g-regulated genes and associated pathways most affected by EGF in keratinocytes. a Heatmap showing log2 fold change in gene expression of IFN-g-regulated genes whose expression was either significantly dampened or augmented by EGF (N = 160, interaction FDR < 0.05). Note that not all genes fit on the axis to the right of the heatmap but are shown in Supplementary Table 3 with detailed data. b Gene network from Network Topology Analysis (NTA) of IFN-g-regulated genes whose expression was either 2-fold higher or lower when EGF was added; genes in the top enriched GO Biological Process category are shaded in red (‘Antigen processing and presentation of exogenous peptide antigen via MHC class II’ [GO:0019886]; FDR = 2.65 × 10−7); blue shading of CXCL10 denoting it as the most strongly upregulated gene by IFN-g to be dampened by EGF treatment. c Volcano plot showing the enriched KEGG pathways within the list of IFN-g-induced genes to be significantly dampened or augmented (interaction FDR < 0.05) by EGF treatment. Dashed line represents statistical significance cutoff of FDR 0.05. d Enrichment plot of the most significantly enriched KEGG pathway (KEGG:04060): ‘Cytokine-cytokine receptor interaction’ (NES = 2.11, P < 0.0001, FDR = 0.003); CXCL10 had the highest ranked list metric (10.5) identifying it as the top gene driving this enrichment signal