Figure 5.
CD4+ GM-CSF+ IFN-γ− T cells possess a unique TCR repertoire. Single cells from the scRNAseq data set presented in Figure 2 were profiled by targeted sequencing of TCR-α and TCR-β chains. A clonotype was defined as one or more cells having an identical CDR3 DNA sequence in both TCR-α and TCR-β genes. (A) The clonotype distribution of each CD4+ T-cell cluster of the scRNAseq data set. Data for each cluster are plotted as the number of individual clonotypes on the y-axis vs the size of each clonotype (number of cells) on the x-axis. (B) The percentage of cells that were singleton clonotypes (clonotype size of one) within each CD4+ T-cell cluster. (C) Venn diagram depicting the overlap of clonotype sequences between CD4+ T-cell clusters. (D) The percentage of overlap in clonotype sequences between the indicated CD4+ T-cell cluster and all other clusters. (E) The proportion of clonotypes that used the indicated Vβ gene in each of the 4 clusters. The top 5 Vβ genes for each cluster are labeled (the full list is provided in supplemental Table 2). (F) Violin plots depicting log-normalized expression of TCR Vβ in cells in the scRNAseq data set. Each dot represents a single cell.