Extended Data Fig. 6: Chromatin accessibility of young and aged macrophages is not rhythmic.
From: Aging disrupts circadian gene regulation and function in macrophages
a. Schematic of investigated possible explanations for differentially rhythmic gene expression by chromatin accessibility. b. Chromatin accessibility (as normalized and log2-transformed values) of promoter regions of differentially rhythmic genes between young and aged peritoneal macrophages. Note that rhythmically expressed genes have higher chromatin accessibility compared to an equal number of randomly selected control genes. n = 15-16 mice in each age group and n = 2-3 mice per 4 h time interval. Boxes extend from the 25th-75th percentiles, whiskers extend to 1.5 times the IQR, and the center line is the median. c. Venn diagrams of the numbers of differentially rhythmic genes between the two age groups (RNA-seq) and the numbers of differentially accessible promoter regions assessed by ATAC-seq. d, Scatterplots of amplitude and q-value for open chromatin peaks as assessed by JTK_CYCLE. No element shows q < 0.2 (indicated by dotted line). e, f, Distribution of unadjusted p-values for oscillations of open chromatin peaks (e) and transcripts (f) in young macrophages, zoomed-in to p < 0.1, JTK_CYCLE.
