Skip to main content

Table 1 Differentially methylated loci (p < 5 × 10−6): high vs. low BMI cases (BE, LGD, HGD/EAC combined)

From: Global DNA methylation patterns in Barrett’s esophagus, dysplastic Barrett’s, and esophageal adenocarcinoma are associated with BMI, gender, and tobacco use

Probe ID Gene Average β low BMI Average β high BMI (overall change) p value Probe location Relation to CpG island Relative expression BE vs. normal^ Relative expression EAC vs. normal^ Cancer associated?
cg11839020 LRRC8D 0.29 0.41 (↑) 4.06E-09 5′UTR Shore 1.59–1.78* 1.44–1.86* N
cg11027822 ITGA6 0.62 0.72 (↑) 1.97E-07 Body Open sea 1.57–3.96* 1.48–2.66* Y
cg25872281 TMUB1 0.66 0.81 (↑) 3.56E-07 TSS1500; body Island 1.32* NS N
cg22984132 TMUB1 0.51 0.62 (↑) 3.64E-07 TSS1500; body Island 1.32* NS N
cg26314478 ESPNP 0.49 0.60 (↑) 3.86E-07 Body Shelf NS NS N
cg09458237 HSPA12B 0.51 0.66 (↑) 4.46E-07 TSS1500 Shore 1.37* 1.89–6.50* Y
cg06393286 FAM43B 0.48 0.36 (↓) 4.64E-07 1st exon Island NS NS Y
cg09058554 SLC25A33 0.39 0.51 (↑) 6.40E-07 Body Shore NS 1.23* Y
cg14950321 PLIN5 0.31 0.42 (↑) 7.21E-07 Body Shore 4.17* NS N
cg02134660 FAM83B 0.52 0.72 (↑) 1.17E-06 TSS1500 Shore NS NS N
cg25302888 TMUB1 0.65 0.77 (↑) 1.23E-06 TSS1500; body Island 1.32* NS N
cg05137975 C6orf168 0.53 0.70 (↑) 1.52E-06 Body Open sea NS 3.64* N
cg16957569 IDO2 0.56 0.69 (↑) 1.68E-06 TSS1500 Open sea NS NS N
cg00831127 EPHB2 0.26 0.49 (↑) 2.33E-06 Body Shore 1.62–6.30* 1.40–7.83* Y
cg25229964 CNKSR1 0.59 0.71 (↑) 2.39E-06 TSS1500 Open sea NS NS N
cg19513232 CAMK2A 0.39 0.52 (↑) 2.43E-06 Body Open sea NS NS N
cg10976975 BMP10 0.72 0.83 (↑) 2.53E-06 5′UTR; 1st exon Open sea NS NS N
cg04025965 TMUB1 0.58 0.72 (↑) 2.66E-06 TSS1500; body Island 1.32* NS N
cg02233614 PFKFB2 0.29 0.39 (↑) 2.82E-06 5′UTR Shore 1.32* 1.12* N
cg06020352 IRF8 0.36 0.50 (↑) 2.92E-06 TSS1500 Shore 1.80–6.36* 3.85–7.56* N
cg08526705 MYC 0.61 0.74 (↑) 2.99E-06 Body Shore NS 3.89* N
cg08943714 HECA 0.28 0.42 (↑) 3.66E-06 Body Open sea NS NS N
cg17161520 TBC1D10C 0.46 0.57 (↑) 3.92E-06 Body Shelf NS 1.14* N
cg10583322 MEGF11 0.49 0.65 (↑) 4.15E-06 Body Open sea NS 1.69* Y
cg02059867 RAPGEFL1 0.42 0.57 (↑) 4.50E-06 1st exon; 5′UTR Island NS NS N
  1. 5′UTR = 5′ untranslated region; TSS1500 = 1500 bp’s upstream from transcription start site; Shore = DNA sequence up to 2 kb from CpG island; Shelf = DNA sequence 2–4 kb from CpG island; Open sea = DNA sequence >4 kb from CpG island; NS = not significant; ^ = relative gene expression data obtained from www.oncomine.org; *p ≤ 0.05; (↑)/(↓) = increase/decrease in methylation in high BMI group vs. the low BMI group