Extended Data Fig. 5: Transcriptional re-wiring of dysfunctional human CD8+ T cells. | Nature Immunology

Extended Data Fig. 5: Transcriptional re-wiring of dysfunctional human CD8+ T cells.

From: Rebalancing TGFβ1/BMP signals in exhausted T cells unlocks responsiveness to immune checkpoint blockade therapy

Extended Data Fig. 5

(a) Volcano plot showing DEGs in acute TCR stimulated versus naïve human CD8+ T cells, or (c) in chronic TCR stimulated versus Dysf. human CD8+ T cells. (b) Gene set enrichment analysis for Ac.TCR versus Naïve CD8+ T cells or (d) Ac.TCR versus Dysf. CD8+ T cells compared against common upregulated genes in human CD8+ T cell subsets following yellow fever vaccination (GSE100745) (e) Heatmap of DEGs between each condition based on relative Z-score and organized into clusters: C1 (yellow; up in Naïve and Dysf.), C2 (orange; up in Dysf. only), C3 (blue; up in Ch.TCR and Ac.TCR), C4 (green; up in Treated.I-III), C5 (purple; up in Ch.TCR, Ac.TCR, and Treated.I-III), and C6 (pink; up in Naïve, Ch.TCR, Ac.TCR, and Treated.I-III). Example genes with significant fold change in expression (fold change >2, p < 0.05) are listed per cluster. N = 2 biological replicates per condition. Panels (5a,5c,5e) were statistically analyzed by DESeq2 from Partek. Panels (5b and 5d) were statistically analyzed by GSEA using Partek.

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