Extended Data Fig. 4: Annotation of multi-lifetime DMR genes.
From: Conserved epigenetic hallmarks of T cell aging during immunity and malignancy
(a) Venn diagram of overlapped gene counts between the multi-lifetime EA program (T cell age), Horvath epigenetic clock and Hannum epigenetic clock. (b) Venn diagram of overlapped gene counts between T cell age, HSC aging hypermethylated genes 24 and EpiTOC mitotic age 39. (c) Top: GSEA enrichment of T Effector H3K27me3 peaks on 4 life-time defined DMRs. Middle: GSEA enrichment of T effector genes from YFV vaccine RNA seq data on 4 life-time defined DMRs. Bottom: GSEA enrichment of GO BP cell cycle genes on 0.5 life-time defined DMRs. All GSEA enrichment plots are comparable with main Fig. 1f. (d) Methylation heatmap of top 150 DMRs between endogenous and 0.5X lifetime samples. (e) Regression analysis of 0.5 LT DMRs versus 4X LT DMRs applied to all murine samples. (f) Representative FACS sorting of three T cell subsets in 2-year old mice cohort. (g) Mean methylation box plots of T cell age and Horvath mouse clock CpGs. n = 2–5 for multi-LT samples, n = 2 for aged mice samples, n = 1 for 1 year LCMV samples. P values based on two-sided Student’s t test.Box and hinges correspond to the first, second and third quartiles, upper whisker extends to min(largest value, upper hinge + 1.5 * IQR), lower whisker extends to max(smallest value, lower hinge - 1.5 * IQR). (h) Methylation level plots of Cdkn2a and Irx2 loci of T cells isolated from 2-year old mice.
