Figure 3

Association of factors with hypomethylation during RBL to LCL conversion. (a) Significant enrichment of predicted transcription factors (TFs; TRANSFAC motif) in hypomethylated regions. The 500-bp region around the center of significantly hypomethylated CpG sites was tested. Color intensity in the heatmap cells represents FDR P-values. Redder and yellower colors indicate greater and lower significance, respectively; gray indicates insignificance. (b) Venn diagram showing overlap of NF-κB targets from ChIPseq (considering targets that are also within the hypomethylated list) and hypomethylated genes (the 131 overlapping genes are listed in Additional file 4). (c) Three examples showing NF-κB p65 binding to the region neighboring the hypomethylated CpGs. The binding motif location is presented as a horizontal green bar. Below, NF-κB p65 and RNA polymerase II (Pol II) binding from GM12878 ChIP-seq data are shown. (d) Venn diagrams showing overlap between hypomethylated genes and transcription factors EBF1, IRF4, MEF2A, MEF2C, PAX5, PU.1, RBPJ, RUNX and EBNA2.