Extended Data Fig. 5: SMARTseq2 analysis of HLA-B40:01-N322-330 epitope (B40/N322 Pent+) specific CD8+ T cells in BALF and PBMC. | Nature Immunology

Extended Data Fig. 5: SMARTseq2 analysis of HLA-B40:01-N322-330 epitope (B40/N322 Pent+) specific CD8+ T cells in BALF and PBMC.

From: Robust mucosal SARS-CoV-2-specific T cells effectively combat COVID-19 and establish polyfunctional resident memory in patient lungs

Extended Data Fig. 5

(a-b) Corplots showing spearman correlation of indicated functional gene modules among specific CD4+ (a) and CD8+ (b) T cells in BALF, related to Fig. 5. The colors of the ellipses indicate the values of correlation coefficient, and the ellipses have their eccentricity parametrically scales to the correlation values. (c) Flow plots showing B40/N322 Pent+CD8+ T cells in paired BALF and PBMC samples from patients carrying HLA-B40:01 subtype, which were sorted and then processed for single-cell sorting into 96-well plates following with sensitive full-length transcriptome sequencing. (d) Wilcoxon matched-pairs comparison of frequencies of B40/N322 Pent+CD8+ T cells between 4 paired BALF and PBMC samples. (e)Volcano plot of DEGs in B40/N322-specific CD8+ T cells comparing BALF versus PBMC by Smart-seq2. Horizontal black dashed line: Benjamini-Hochberg adjusted P value = 0.05. (f) GSEA analysis on B40/N322-specific CD8+ T cells comparing BALF versus PBMC. (g) Dot plots showing expression level of selected genes in B40/N322-specific CD8+ T cells from BALF and PBMC.

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