Table 2. Top ten CpG sites from the epigenome-wide association study of DNA methylation with the Area Deprivation Index, stratified by the presence or absence of the APOE ε4 allele.
| Total (n=159) | ε4 present (n=89) | ε4 absent (n=70) | Effect modification | |||||||
| CpG | Chromosome | Position | Gene(s) | Effect estimate | P-value | Effect estimate | P-value | Effect estimate | P-value | P-value |
| cg26514961 | 12 | 94566784 | PLXNC1 | -0.0052 | 5.0e-8 | -0.0050 | 0.0033 | -0.0008 | 0.0002 | 8.7e-6 |
| cg08087060 | 16 | 87795808 | KLHDC4 | -0.0040 | 5.7e-7 | -0.0036 | 0.0030 | -0.0007 | 0.0009 | 4.6e-5 |
| cg01291468 | 2 | 234589374 |
UGT1A10;UGT1A7;
UGT1A9;UGT1A8 |
0.0034 | 1.4e-6 | 0.0027 | 0.0098 | 0.0004 | 0.0019 | 0.0003 |
| cg05419854 | 17 | 19398395 | - | -0.0058 | 1.8e-6 | -0.0042 | 0.0190 | -0.0008 | 0.0004 | 1.0e-5 |
| cg16241648 | 7 | 98923114 | ARPC1A | 0.0016 | 2.1e-6 | 0.0018 | 0.0046 | 0.0003 | 0.0020 | 0.0002 |
| cg20912923 | 8 | 2885516 | CSMD1 | -0.0026 | 2.5e-6 | -0.0021 | 0.0083 | -0.0002 | 0.0008 | 3.1e-5 |
| cg15953452 | 3 | 63053400 | - | -0.0050 | 2.5e-6 | -0.0042 | 0.0105 | 0.0008 | 0.0001 | 6.2e-6 |
| cg06787422 | 15 | 63331851 | - | -0.0024 | 3.1e-6 | -0.0015 | 0.0411 | -0.0002 | 0.0012 | 0.0001 |
| cg13521319 | 9 | 133423844 | - | -0.0018 | 3.4e-6 | -0.0020 | 0.0019 | -0.0001 | 0.0046 | 0.0007 |
| cg09431774 | 22 | 25465561 | KIAA1671 | -0.0028 | 3.6e-6 | -0.0020 | 0.0249 | -0.0002 | 0.0002 | 8.6e-6 |
Bold: statistically significant at the Bonferroni threshold of 6.33e-8.
Effect estimates can be interpreted per a 20-unit increase in ADI. All models were adjusted for the following covariates: race, sex, educational attainment, age at death, apolipoprotein E (APOE) genotype, cell type, and post-mortem interval.