Table 2.
Summary and test statistics for the 12 sentinel CpG sites comparing never with current smokers
| Target ID | Chr | Location (bp) a | Gene ID or region | Relation to CpG island |
Median β-values (IQR) all samples |
Effect size (%) b | F-statistic c | P-value c | Rank | |
|---|---|---|---|---|---|---|---|---|---|---|
| Never smokers | Current smokers | |||||||||
| cg09069072 |
1 |
15482753 |
TMEM51 |
South Shore |
0.85 (0.82, 0.87) |
0.79 (0.75, 0.83) |
-0.06 |
31.49 |
8.5 × 10-8 |
11 |
| cg25189904 |
1 |
68299493 |
GNG12 |
South Shore |
0.25 (0.20, 0.32) |
0.18 (0.16, 0.22) |
-0.07 |
35.05 |
1.9 × 10-8 |
7 |
| cg09935388 |
1 |
92947588 |
GFI1 |
CpG Island |
0.57 (0.42, 0.75) |
0.27 (0.21, 0.38) |
-0.30 |
47.85 |
1.0 × 10-10 |
6 |
| cg21566642 |
2 |
233284661 |
2q37.1 |
CpG Island |
0.49 (0.43, 0.52) |
0.32 (0.28, 0.37) |
-0.16 |
172.13 |
3.0 × 10-27 |
2 |
| cg03274391 |
3 |
22413232 |
3p24.3 |
North Shore |
0.31 (0.21, 0.44) |
0.56 (0.34, 0.75) |
+0.25 |
34.56 |
2.3 × 10-8 |
8 |
| cg05575921 |
5 |
373378 |
AHRR |
North Shore |
0.77 (0.74, 0.79) |
0.55 (0.52, 0.58) |
-0.22 |
658.31 |
6.1 × 10-59 |
1 |
| cg13039251 |
5 |
32018601 |
PDZD2 |
|
0.71 (0.65, 0.79) |
0.83 (0.76, 0.89) |
+0.11 |
33.46 |
3.7 × 10-8 |
9 |
| cg06126421 |
6 |
30720080 |
6p21.33 |
|
0.75 (0.64, 0.82) |
0.52 (0.41, 0.66) |
-0.23 |
63.64 |
2.6 × 10-13 |
5 |
| cg17619755 |
6 |
31760629 |
VARS |
North Shelf |
0.61 (0.57, 0.65) |
0.67 (0.63, 0.72) |
+0.05 |
31.89 |
7.2 × 10-8 |
10 |
| cg22132788 |
7 |
45002486 |
MYO1G |
CpG Island |
0.83 (0.76, 0.89) |
0.95 (0.90, 0.97) |
+0.12 |
89.85 |
3.1 × 10-17 |
4 |
| cg01731783 |
14 |
74211788 |
C14orf43 |
|
0.40 (0.35, 0.43) |
0.33 (0.31, 0.37) |
-0.07 |
31.46 |
8.6 × 10-8 |
12 |
| cg03636183 | 19 | 17000585 | F2RL3 | North Shore | 0.36 (0.31, 0.40) | 0.23 (0.20, 0.28) | -0.12 | 93.30 | 1.0 × 10-17 | 3 |
alocation based on build37/hg19 reference assembly. bEffect size is calculated as the median methylation difference between smokers and non-smokers. Direction of difference is indicated by +/-. cF-statistic and P-values from ANOVA measuring association between smoking status and methylation adjusted for ethnic group.