Table 4.
Differentially methylated positions associated with HbA1c with and without adjustment for body mass index
| Base model |
Adjusted for BMI |
||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| CpG | CHR | Position | Nearest genea | Featureb | Delta β-valuec | P-valued | FDRd | BACON FDRe | P-valued | FDRd | BACON FDRe |
| cg19693031 | 1 | 145 441 552 | TXNIP | 3’UTR | −0.0016 | 8.26E-45 | 3.55E-39 | 7.74E-37 | 3.18E-44 | 1.36E-38 | 3.71E-33 |
| cg04816311 | 7 | 10 66 650 | C7orf50 | Body | 0.0008 | 1.87E-15 | 4.00E-10 | 1.37E-08 | 2.33E-15 | 5.00E-10 | 1.23E-07 |
| cg14020176 | 17 | 72 764 985 | SLC9A3R1 | 3’UTR | 0.0003 | 2.16E-10 | 3.09E-05 | 3.61E-04 | 4.45E-10 | 6.20E-05 | 2.32E-03 |
| cg00574958 | 11 | 68 607 622 | CPT1A | 5’UTR | −0.0004 | 5.16E-10 | 5.54E-05 | 2.16E-03 | 5.37E-09 | 4.61E-04 | 3.98E-02 |
| cg05201300 | 5 | 172 443 740 | ATP6V0E1 | Body | −0.0005 | 2.79E-09 | 2.16E-04 | 6.54E-03 | 5.77E-10 | 6.20E-05 | 8.48E-03 |
| cg08309687 | 21 | 35 320 596 | LINC00649 | IGR | −0.0006 | 3.01E-09 | 2.16E-04 | 6.54E-03 | 6.82E-09 | 4.88E-04 | 4.01E-02 |
| cg03078690 | 6 | 33 235 504 | VPS52 | Body | 0.0003 | 3.46E-08 | 1.86E-03 | 1.41E-02 | 1.77E-07 | 7.59E-03 | 9.76E-02 |
| cg12655112 | 15 | 42 261 154 | EHD4 | Body | −0.0005 | 1.11E-08 | 6.81E-04 | 1.49E-02 | 1.44E-08 | 8.78E-04 | 6.00E-02 |
a
CpGs are located in the gene if no distance is indicated (genome build Hg19).
b
Based on manifest feature annotation Illumina; IGR = intergenic region.
c
Beta coefficients were computed from methylation beta-values. Negative beta-values indicate lower DNA methylation (hypomethylation) for 0.1 µl/mol (2.2%) higher HbA1c.
d
Numbers are P-values and FDR corresponding to M-values.
e
FDR corresponding to M-values for the models corrected for inflation by possible systematic biases using the BACON method. Results are sorted on P-values for the BACON-adjusted base model.
CHR, Chromosome.