Fig. 3. De novo identification of cognate epitopes for expanded CD4+ T cells.
a, Representative SABR-II screen results for three TCRs are shown. Putative non-APL hits are indicated with the epitope sequences and larger red dots. Each dot represents an epitope in the library. The dotted lines indicate threshold for calling putative hits. b, Single SABR-II co-incubation assays with TCR-expressing Jurkat cells against NFAT–GFP Jurkat cells expressing SABR-IIs presenting a single epitope (as indicated). GFP+CD69+ cells in co-incubation assays at 18 h are quantified. Bars show mean and s.d. from three biological replicates. c, Projection of antigen-specific CD4+ T cell clones onto the UMAP plots of islet-infiltrating CD4+ T cells. TCRs are color coded and their cognate epitopes are indicated in the plot title.