Table 1.

TFBS enrichment analysis points to altered TFBS occupancy as a mechanism underlying some examples of tissue specific and tissue-invariant DS-DM

Cell type	Best match	HOMER alignment score	Percentage of DS-DM CpGs (n = 419)	Percentage of background CpGs (n = 437,650)	P value	Enriched TF peaks among HOMER motif instances in ENCODE ChipSeq data (p < 0.05 and OR ≥ 1.5)
T cell hypomethylated	RUNX	0.79	25.3	11.0	1.00E-15	RUNX
T cell hypomethylated	BATF::JUN (FOS)	0.948	21.0	7.9	1.00E-16	FOS/JUN

Top ranked TFBSs from HOMER de novo motif searches, showing a strong enrichment among T-cell hypomethylated loci in DNA sequences with a high alignment to RUNX and JUN/FOS consensus motifs, validated by a finding of enrichment in RUNX and JUN/FOS binding peaks in ChIPSeq data from ENCODE. The full de novo motif search results for all DS-DM sets are in Table S14a in Additional file 2. OR odds ratio