TABLE 3.
Categorical model: all individuals (Model 2) | Categorical model: sensitivity analysis of supplement nonusers LOOKUP (Model 2a) | Categorical model: sensitivity analysis of same time point FFQ and DNAm LOOKUP (Model 2b) | Continuous model: all individuals LOOKUP (Model 1) | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
CpG | Nearest gene | Chromosome | bp | N | Effect | SE | P | FDR | I 2 | N | Effect | SE | P | N | Effect | SE | P | N | Effect | SE | P | |
1 | cg23465990 | FAM64A (−605) | 17 | 6,347,153 | 3791 | −0.0012 | 2.2 × 104 | 3.9 × 108 | 0.018 | 0.02 | 2120 | −0.0012 | 2.6 × 104 | 5.3 × 106 | 2,090 | −0.0010 | 2.9 × 104 | 9.2 × 104 | 5,661 | −0.000004 | 1.0 × 106 | 2.4 × 105 |
2 | cg11832534 | WRAP73 (+2,648), TPRG1L (+22,467) | 1 | 3,563,998 | 3894 | −0.0041 | 7.7 × 104 | 9.0 × 108 | 0.021 | 0 | 2183 | −0.0032 | 9.6 × 104 | 7.9 × 104 | 2,193 | −0.0041 | 9.7 × 104 | 2.2 × 105 | 5,815 | −0.000015 | 3.0 × 106 | 8.9 × 106 |
3 | cg032490111 | SCYL1 (−96,576), FRMD8 (+41,931) | 11 | 65,195,995 | 3894 | −0.0075 | 1.4 × 103 | 1.8 × 107 | 0.029 | 0 | 2183 | −0.0074 | 1.8 × 103 | 4.2 × 105 | 2,193 | −0.0077 | 1.9 × 103 | 3.0 × 105 | 5,815 | −0.000016 | 6.0 × 106 | 7.5 × 103 |
4 | cg14398883 | MYL10 (−125,633), CUX1 (−62,673) | 7 | 101,398,184 | 3894 | −0.0079 | 1.6 × 103 | 5.1 × 107 | 0.049 | 0 | 2183 | −0.0048 | 1.4 × 103 | 5.2 × 104 | 2,193 | −0.0066 | 2.2 × 103 | 2.9 × 103 | 5,815 | −0.000028 | 6.0 × 106 | 1.0 × 106 |
5 | cg00826902 | WRAP73 (+2,692), TPRG1L (+22,423) | 1 | 3,563,954 | 3894 | −0.0049 | 9.8 × 104 | 5.9 × 107 | 0.049 | 0.49 | 2183 | −0.0053 | 1.2 × 103 | 1.5 × 105 | 2,193 | −0.0026 | 1.2 × 103 | 3.4 × 102 | 5,815 | −0.000019 | 4.0 × 106 | 3.2 × 106 |
6 | cg14145338 | LCN6 (−6,084), LCN8 (+3,667) | 9 | 139,649,039 | 3894 | −0.0061 | 1.2 × 103 | 6.2 × 107 | 0.049 | 0.05 | 2183 | −0.0061 | 1.4 × 103 | 2.1 × 105 | 2,193 | −0.0042 | 1.5 × 103 | 6.2 × 103 | 5,815 | −0.000022 | 5.0 × 106 | 2.0 × 105 |
Location = Enhancer, based on Illumina annotation, derived from the University of California, Santa Cruz (UCSC). FDR threshold = 0.05; statistical test: linear mixed models, adjusted for BMI, white blood cell counts, smoking status, physical activity, B-vitamin supplement intake, alcohol and coffee consumption, and batch effects. bp, base pair location based on Illumina annotation; Effect, beta coefficients based on unstandardized residuals of folate intake (1 µg/d), adjusted for total energy intake; FDR, false discovery rate; FFQ, food-frequency questionnaire; I2, heterogeneity I2 parameter.