Fig. 2: Classical ABC expression of AIRE and AIRE target genes.

a Volcano plot displaying the differentially expressed genes in ABCs compared to other B cell clusters. Upregulated genes associated with antigen uptake, processing and MHC class II presentation are labelled. AIRE gene is coloured in green. Statistical testing via two-tailed Wilcoxon rank sum test with Bonferroni correction. b UMAP of all B cells coloured by kernel density estimation of AIRE expression level across all identified B cell subsets. UMAP showing the different B cell clusters inset. c Percentage of cells which are AIRE⁺ in each cluster. d Violin plot comparing expression score of tissue restricted antigens (gene set from Yamano et al.) in AIRE expressing cells (n = 503) and all other cells (n = 51899). In the boxplot, the centre, lower and upper bounds of the box correspond to the median, first quartile and third quartile respectively. The upper(lower) whisker extends from the box to the largest(smallest) value no further than 1.5 * IQR from the box upper(lower) bound (where IQR is the inter-quartile range, or distance between the first and third quartiles). Statistical testing via one-tailed Wilcoxon rank sum test.