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Table 6 Summary of significant differentially methylated regions

From: Epigenetic adaptations of the masticatory mucosa to periodontal inflammation

Chr:position (start–end) (hg19) Gene symbol Median TPM* Regulatory features** Paired analysis Full analysis
p FWER p FWER
chr1:224,544,384–224,544,535 CNIH4 723 TSS; DHS  < 10–6  < 0.01  < 10–6  < 0.01
chr16:3,220,475–3,221,355 tRNA pseudogene NA R, E, TSS***  < 10–6  < 0.01 4.7 × 10–4 0.04
chr1:23,857,884–23,858,301 E2F2 154 TSS; DHS 9.8 × 10–5 0.01 n.s n.s
chr11:8,986,449–8,986,674 TMEM9B 1020 TSS; DHS 9.8 × 10–5 0.01 n.s n.s
chr6:31,515,391–31,515,404 NFKBIL1 128 TSS; DHS 9.8 × 10–5 0.01 1.2 × 10–4 0.01
chr7:158,342,283–15,8342,600 PTPRN2 39 R, T, WE***; DHS 9.8 × 10–5 0.01 5.9 × 10–4 0.04
chr10:135,164,246–135,164,482 PRAP1 0 T 9.8 × 10–5 0.01 5.9 × 10–4 0.04
chr19:2,462,441–2,462,961 LMNB2 1103 R, E, TSS*** 2.0 × 10–4 0.02 5.9 × 10–4 0.04
chr11:64,360,872–64,360,997 SLC22A12 0 R 2.9 × 10–4 0.03 n.s n.s
chr11:2,919,808–2,920,209 SLC22A18 (+ -AS) 53 (5) TSS, E, WE***; DHS 3.9 × 10–4 0.04 n.s n.s
chr1:161,087,882–161,087,906 NIT1 238 TSS; DHS 3.9 × 10–4 0.04 n.s n.s
  1. *mRNA-sequencing in healthy keratinized oral mucosa with 16mio reads/sample [12]. **Based on ChIP-seq data from the ENCODE Consortium. ***depending on cell type. DNase hypersensitivity sites (DHS) with cluster score 1000 are listed. TPM = transcripts per million, FWER = family wise error rate, TSS = Predicted promoter region including transcription start site, E = Predicted enhancer, WE = Predicted weak enhancer or open chromatin cis regulatory element, T = Predicted transcribed region, R = Predicted repressed or low activity region, N.s. = not significant (p and FWER > 0.05, respectively)