Genomic region of CD28 (class A gene). Upper panel: normalized accessibility signal, aggregated across cells from selected clusters. Violin plots (top right) show expression and noise levels across each cluster. Differential accessibility test of T cells against the remaining dataset was performed. Peaks (middle panel) were annotated based on increased accessibility (“Open”), no change (“NA”), or decreased accessibility (“Closed”). Threshold values: log 2 fold change (log 2 FC) > 1.25, adjusted P value (padj) < 0.001. Gene linkages [ 26 ] between expression and accessibility within individual peaks (links Ex-Pk) or noise and peak accessibility (links N-Pk) are shown in the lower panel, with scores corresponding to Pearson correlation coefficients. These links bind the TSS of the corresponding gene and peaks where a significant correlation was detected, and they do not represent spatial chromatin organization.
