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Table 1 Smoking differentially methylated sites in adipose tissue (42 smoking-DMS)

From: Smoking induces coordinated DNA methylation and gene expression changes in adipose tissue with consequences for metabolic health

IlmnID CHR Location Gene name Non-smoker Current smoker Coef. S.E. P value cis-meQTL S*
β (mean ± SD) β (mean ± SD)
cg05951221 2 233284402 2q37.1 0.255 ± 0.054 0.172 ± 0.040 − 1.380 0.108 1.28 × 10−29 rs2853386; 3.87 × 10−8  
cg21566642 2 233284661 2q37.1 0.225 ± 0.040 0.167 ± 0.029 − 1.347 0.122 1.87 × 10−23   
cg23680900 15 75017924 CYP1A1 0.202 ± 0.036 0.155 ± 0.030 − 1.198 0.118 2.96 × 10−21   O
cg14120703 9 139416102 NOTCH1 0.748 ± 0.045 0.693 ± 0.044 − 1.172 0.118 1.44 × 10−20   
cg26516004 15 75019376 CYP1A1 0.696 ± 0.047 0.628 ± 0.058 − 1.258 0.126 1.95 × 10−20   Y
cg10009577 15 75018150 CYP1A1 0.068 ± 0.021 0.050 ± 0.016 − 0.810 0.090 2.48 × 10−17   Y
cg01985595 6 136479501 PDE7B 0.961 ± 0.025 0.936 ± 0.032 − 1.015 0.119 1.09 × 10−15   Y
cg22418620 5 172072885 NEURL1B 0.832 ± 0.049 0.765 ± 0.057 − 1.077 0.127 1.63 × 10−15 rs57285944; 2.15 × 10−8 Y
cg23160522 15 75015787 CYP1A1 0.622 ± 0.033 0.583 ± 0.044 − 0.991 0.122 1.33 × 10−14   Y
cg03636183 19 17000585 F2RL3 0.506 ± 0.040 0.473 ± 0.038 − 0.826 0.103 1.80 × 10−14   
cg07992500 2 37896583 CDC42EP3 0.771 ± 0.051 0.719 ± 0.052 − 1.087 0.141 1.88 × 10−13 rs7595854; 1.32 × 10−7  
cg12531611 6 11212619 NEDD9 0.909 ± 0.021 0.892 ± 0.024 − 0.855 0.120 1.12 × 10−11   O
cg03646542 5 172076155 NEURL1B 0.689 ± 0.037 0.654 ± 0.035 − 0.880 0.133 1.87 × 10−10 rs7715699; 1.72 × 10−10 Y
cg00353139 15 75017914 CYP1A1 0.034 ± 0.013 0.022 ± 0.010 − 0.787 0.121 4.47 × 10−10 rs11072498; 2.47 × 10−6 Y
cg21124714 11 72983097 P2RY6 0.736 ± 0.037 0.707 ± 0.033 − 0.874 0.136 5.15 × 10−10   Y
cg01940273 2 233284934 2q37.1 0.334 ± 0.045 0.302 ± 0.044 − 0.679 0.105 8.93 × 10−10   
cg25648203 5 395444 AHRR 0.503 ± 0.044 0.459 ± 0.040 − 0.825 0.132 1.30 × 10−9   
cg20408276 2 38300586 CYP1B1 0.548 ± 0.060 0.499 ± 0.059 − 0.781 0.125 1.61 × 10−9   O
cg20131897 12 52305332 ACVRL1 0.694 ± 0.034 0.673 ± 0.028 −0.693 0.116 5.61 × 10−9 rs1700159; 2.97 × 10−7 Y
cg21611682 11 68138269 LRP5 0.370 ± 0.041 0.336 ± 0.035 −0.734 0.124 8.10 × 10−9   
cg19405895 5 407315 AHRR 0.955 ± 0.014 0.942 ± 0.024 −0.768 0.128 8.38 × 10−9   Y
cg05575921 5 373378 AHRR 0.713 ± 0.044 0.682 ± 0.039 − 0.611 0.104 1.07 × 10−8 rs7731963; 3.97 × 10−8  
cg13531977 9 112013420 EPB41L4B 0.807 ± 0.035 0.833 ± 0.029 0.831 0.140 1.14 × 10−8   Y
cg00512031 4 5021976 CYTL1 0.880 ± 0.026 0.855 ± 0.028 −0.760 0.129 1.23 × 10−8 chr4:5022470;1.42 × 10−9 Y
cg25189904 1 68299493 GNG12 0.100 ± 0.043 0.064 ± 0.030 − 0.771 0.131 1.48 × 10−8   
cg00378510 19 2291020 LINGO3 0.217 ± 0.059 0.181 ± 0.053 −0.781 0.134 1.53 × 10−8 rs12609156; 6.83 × 10−18  
cg11554391 5 321320 AHRR 0.065 ± 0.019 0.048 ± 0.014 −0.720 0.125 2.00 × 10−8   
cg01802380 13 107865407 FAM155A 0.845 ± 0.030 0.825 ± 0.037 −0.737 0.133 5.69 × 10−8 rs9520326; 1.52 × 10−12 Y
cg14179389 1 92947961 GFI1 0.083 ± 0.030 0.063 ± 0.028 −0.665 0.122 1.07 × 10−7   
cg06644428 2 233284112 2q37.1 0.036 ± 0.018 0.024 ± 0.010 − 0.704 0.130 1.61 × 10−7   
cg12081267 2 98486185 TMEM131 0.878 ± 0.038 0.858 ± 0.035 − 0.650 0.122 1.97 × 10−7   Y
cg02162897 2 38300537 CYP1B1 0.567 ± 0.060 0.520 ± 0.061 −0.674 0.127 2.89 × 10−7   O
cg11555067 2 99081350 INPP4A 0.725 ± 0.047 0.700 ± 0.046 −0.717 0.138 3.18 × 10−7 rs3754893; 2.27 × 10−7  
cg04134818 5 148998446 FLJ41603 0.153 ± 0.026 0.133 ± 0.025 −0.690 0.132 3.26 × 10−7 rs11950259; 7.83 × 10−6 Y
cg03976650 13 77456505 KCTD12 0.667 ± 0.061 0.612 ± 0.067 −0.754 0.143 3.56 × 10−7   Y
cg22851561 14 74214183 C14orf43 0.422 ± 0.041 0.390 ± 0.040 −0.634 0.121 3.92 × 10−7   
cg10376100 1 236017278 LYST;MIR1537 0.923 ± 0.036 0.947 ± 0.030 0.615 0.117 4.03 × 10−7   Y
cg04063216 2 14772482 FAM84A 0.071 ± 0.016 0.075 ± 0.019 0.441 0.085 4.39 × 10−7   Y
cg16320419 3 5025570 BHLHE40 0.352 ± 0.052 0.315 ± 0.048 − 0.699 0.135 4.88 × 10−7   
cg04135110 5 346695 AHRR 0.339 ± 0.061 0.384 ± 0.065 0.699 0.137 5.34 × 10−7 rs2672748; 3.42 × 10−17  
cg20109054 6 31804109 C6orf48;SNORD52 0.091 ± 0.026 0.072 ± 0.023 − 0.659 0.130 7.85 × 10−7 rs3828922; 2.74 × 10−5  
cg16721845 11 68518800 MTL5 0.018 ± 0.008 0.014 ± 0.007 − 0.530 0.106 8.37 × 10−7   Y
  1. IlmnID, Illumina probe ID; CHR, chromosome; Location, location of the CpG site (bp); β (mean ± SD), mean and standard deviation of the Illumina beta methylation levels in the non-smoker and current smoker group; Coef., regression coefficients from the linear mixed effect model, positive values denote hypermethylation in current smokers and negative values denote hypo-methylation in current smokers; cis-meQTL, top significant cis-meQTL for the CpG site; S*, adipose tissue-specific effect
  2. Here, we compared our results to one of the biggest smoking-EWAS conducted in blood [20], probes not listed as their significant signals (on their Additional file 2: Table S2, FDR ≤ 0.05) were recorded as “Y” in this table; probes with significant effects in blood in the opposite direction are recorded as “O”