Extended Data Fig. 4: Characterization of the TCR repertoire in RLNs and the diseased arterial wall.
a, TCRβ chain V- and J-gene usages in WT RLNs, Apoe-/- RLNs, ATLOs, and plaques. V and J segments are represented by arcs, the size of arcs represents their frequencies. V-J pairings are represented by ribbons. b, Distribution of TCRβ V families (TRBV) of total T cells in WT RLNs, Apoe-/- RLNs, ATLOs, and plaques. Chi-square post hoc test with Benjamini-Hochberg correction was performed to analyze difference among tissues in each TRBV families. c,d, T cell expansion was calculated by measuring the clonal expansion index (that is Gini index) together with the diversification index (i.e Shannon entropy index) of TCRs. Data from each tissue were randomly down-sampled to the same level (95% of plaque T cells with paired TCRαβ chain, that is 161 cells) and this was repeated 1000 times (c,d). The boxplot shows the 25th percentile, median, and 75th percentile values. Each dot represents one time replication. Shapiro-Wilk test was first used to evaluate the data distribution of each group. Data that do not follow normal distribution were analyzed using the Kruskal-Wallis test with Dunn’s non-parametric all-pairs comparison test. The P values were adjusted by Bonferroni correction.
