Transcriptomic analysis of pathogen-specific CD4 T cells. (A) Global view of the fold changes in gene expression for genes that were significantly (FDR q-value < 0.05) up-regulated in CMV-specific CD4 T cells (667, red) or in TT- and C albicans–specific CD4 T cells (1171, green). (B) Heat map for global comparison of gene-expression changes between CMV-specific (middle) and TT-specific (right) or C albicans–specific (left) CD4 T cells from 3 subjects. Relative up-regulation (red) and down-regulation (green) of mRNA level are shown. (C) Functional category and gene ontology enrichment analysis using DAVID based on significant genes identified by SAM. The number of significant genes and P value for each category are shown. (D) List of genes that are up-regulated in CMV-specific CD4 T cells and associated with antiviral responses. The fold increase of each gene is expressed as CMV relative to the combined TT and C albicans. (E-F) List of genes that are up-regulated in TT-specific (E) or C albicans–specific (F) CD4 T cells and associated with Th17 inflammatory responses. The fold increase is expressed as TT relative to CMV or C albicans relative to CMV. Data are shown as the geometric means of the fold increases for 3 subjects. Three donors and 3 independent microarray analyses were performed. NS indicates no significance. *FDR q-value < 0.05.