Differences between the methylomes of ILCs and Th cells. (A) Th1 (CD3⁺CD4⁺Foxp3⁻CD44^hiCD62L^lowT-bet⁺), Th2 (CD3⁺CD4⁺Foxp3⁻CD44^hiCD62L^lowGata3⁺), and Th17 cells (CD3⁺CD4⁺Foxp3⁻CD44^hiCD62L^lowRORγt⁺) were sorted by flow cytometry from pooled pLNs and spleen and subjected to WGBS. (A) Unsupervised hierarchical clustering of the top 1,000 DMRs among Th and ILC subsets. The color represents the degree of mean methylation value, ranging from yellow (methylation level = 0) to blue (methylation level = 100%). (B and C) Methylation values of the top 75 hypermethylated (B) and hypomethylated (C) DMRs derived from the comparisons of ILC vs. Th cell groups. The list is sorted according to the absolute mean methylation difference between the groups in descending order. Individual sample methylation values are represented by the displayed symbols. Multiple symbols indicate multiple DMRs in the same gene locus. Data for analysis of ILC methylomes was derived from the initial WGBS. Th cell populations were pooled from a total of n = 13 mice. WGBS was performed in unicates for Th1, Th2, and Th17 cells.