Fig. 2.

Dynamic profile of DEGs in IE-CTLs in response to stimulation with tissue alarmins and adaptive cytokine. (A) Unsupervised hierarchical clustering of all DEGs (|log2 fold change|>1, FDR ≤ 0.01) across stimulations (n = 8 samples per timepoint and condition). Ten major clusters were defined as biologically relevant. Colors indicate scaled log2 fold change in expression with respect to unstimulated samples, with red and blue indicative of a two-fold or more increase or decrease in expression, respectively. (B) Line plots illustrating the mean log2 fold changes in expression of genes in a given cluster. Shades represent the standard error of the log2 fold changes. Top 5 most significant pathways from GSA identified by Reactome (q-value ≤ 0.01) in DEGs (only clusters where enrichment was found are depicted). Colors (key) indicate significance. (For interpretation of the references to color in this figure legend, the reader is referred to the Web version of this article.)