Fig. 6

C215Fab-SEA enriched the TCR repertoire diversity in the TME. A V beta segment usage pie charts of tumors following treatment at the tested timepoints over the course of the treatment cycles. Pie charts display the mean clonal distribution of each beta chain as detailed in the legend. The frequencies of TCR Vβ3 (gray) are shifted out of the pie chart (n = 3/group/cycle); each pie chart displays > 99% of total TCR β reads. B Violin plots display the mean unique TCR Vβ3 (left) and non-TCR Vβ3 (right) T-cell clone counts found in the tumors of each treatment group over the treatment cycles. C Violin plot displays the diversity of each sample as calculated by Shannon's entropy (H) index in the tumors over the tested timepoints. Entropy was calculated by summing the frequency of each clone times the log2 of the same frequency over all productive reads in a sample. The higher the H index was, the more diverse the CDR3 clone distribution. D Samples were analyzed for the shared occurrence of TCR beta sequences to determine the clonality score. The violin plot shows the clonality score over the treatment cycles in tumors of treated groups defined as the probability of two independently identified sequences originating from the same clone. E Violin plot displays the mean (± SEM) evenness score calculated as the relative abundance of unique TCR sequences of each sample using Pielou’s index. Increased evenness indicates the clonal expansion and dominance of TCR clones in the sample. F Violin plot displaying TCR convergence in tumors over the tested timepoints. TCR convergence is calculated as the aggregated frequency of clones with unique TCR beta sequences sharing a variable gene and CDR3AA sequence with at least one other identified clone. The timepoints in all figures are indicated as C1-C4 (cycles 1–4, respectively). n = 3/group/timepoint. B–F Statistical significance was determined by two-way ANOVA with Tukey’s multiple comparisons test. *p < 0.05, **p < 0.01, ***p < 0.001, ****p < 0.0001, versus the timepoint-matched control, for C4 Combo versus C215Fab-SEA