Extended Data Fig. 8: BAL T cells in SARS-CoV-2-P are virus specific in HLA context. | Nature Immunology

Extended Data Fig. 8: BAL T cells in SARS-CoV-2-P are virus specific in HLA context.

From: Distinctive evolution of alveolar T cell responses is associated with clinical outcomes in unvaccinated patients with SARS-CoV-2 pneumonia

Extended Data Fig. 8

(a) Proportion of HLA-A molecules identified in CD8+ T cells in SARS-CoV-2-P samples (n of patients = 14). (b) As in a, for HLA-B. (c) Left: Proportion of TCRβ (V) gene usage in CD8+ TCR sequences in SARS-CoV-2-P samples (n of patients = 14). Middle: Absolute number of TCRβ sequences for each V region. Right: Representative epitopes from TCR chains exhibiting a count > 5 per dominant gene (TRBV12-3 and TRBV27). (d) As in c, for CD4+ TCR sequences. Right: Dominant genes (TCR count > 30) and representative epitopes are annotated for TRBV6-6 and TRBV20-1. (e) Proportion of HLA-A allele representation for detected CD8+ TCRβ (V) segments. (f) As in e, for HLA-B. (g) Heatmap of association measure of HLA alleles distribution within distinct V genes (1 – normalized Shannon entropy). (h) Proportion of TCRs detected by patient with distinct V gene segments.

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