Table 1.
Differentially Methylated Positions in PBLs From Patients With AD Measured by Bisulfite Pyrosequencing
| Gene ID | CpG site coordinates GRCh37/Hg19 | Illumina ID for CpG sites | Patients With AD (n = 80) | Controls (n = 100) | Δ % | p Value | PMID | |
| ABCA7 | 19 | 1046615 | cg06169110 | 94.56 | 94.69 | −0.14 | 0.447 | 31843015 |
| ABCA7 | 19 | 1046617 | 98.19 | 98.75 | −0.56 | 0.018 | 31843015 | |
| ADAM10 | 15 | 59041176 | cg02625641 | 2.80 | 3.07 | −0.27 | 0.226 | 31843015 |
| ADAM10 | 15 | 59041183 | 1.91 | 3.03 | −1.12 | 0.0007 | 31843015 | |
| ADAM10 | 15 | 59041185 | 0.86 | 0.58 | 0.28 | 0.172 | 31843015 | |
| ANK1 | 8 | 41685596 | cg19997384 | 29.00 | 29.25 | −0.25 | 0.819 | 31843015 |
| ANK1 | 8 | 41685605 | 17.65 | 17.61 | 0.04 | 0.885 | 31843015 | |
| APOE | 19 | 45411874 | cg05501958 | 91.36 | 90.82 | 0.54 | 0.001 | 29371683 |
| APOE | 19 | 45411881 | 98.74 | 99.03 | −0.29 | 0.698 | 29371683 | |
| APOE | 19 | 45411876 | 99.71 | 99.69 | 0.03 | 0.436 | 29371683 | |
| APOE | 19 | 45411864 | 99.58 | 99.03 | 0.55 | 0.084 | 29371683 | |
| BDNF | 11 | 27743580 | cg16257091 | 5.75 | 6.34 | −0.59 | 0.025 | 25364831 |
| BDNF | 11 | 27743583 | 5.50 | 6.36 | −0.86 | 0.005 | 25364831 | |
| BIN1 | 2 | 127800646 | cg22883290 | 93.94 | 94.32 | −0.37 | 0.903 | 31217032; 31335457; 25129075 |
| GP1BB | 22 | 19712034 | cg11414921 | NA | NA | NA | NA | 31843015 |
| HAND2 | 4 | 174447847 | cg01566965 | 28.99 | 30.83 | −1.84 | 0.148 | 31217032 |
| HIST1H3E | 6 | 26225269 | cg13836098 | 51.32 | 51.65 | −0.33 | 0.677 | 31217032; 31843015 |
| HIST1H3E | 6 | 26225259 | cg26092675 | 58.28 | 57.45 | 0.83 | 0.369 | 31217032; 31843015 |
| HOXA3 | 7 | 27153580 | cg01301319 | 96.17 | 96.30 | −0.13 | 0.755 | 31217032 |
| HOXA3 | 7 | 27153577 | 91.63 | 90.75 | 0.88 | 0.0004 | 31217032 | |
| HOXA3 | 7 | 27153574 | 94.38 | 93.85 | 0.52 | 0.123 | 31217032 | |
| HOXB6 | 17 | 46679517 | cg02566861 | 50.85 | 51.99 | −1.14 | 0.758 | 31217032; 31843015 |
| IRS2 | 13 | 110437094 | cg05404236 | 14.08 | 15.17 | −1.09 | 0.149 | 31217032 |
| IRS2 | 13 | 110437098 | 10.35 | 11.12 | −0.78 | 0.152 | 31217032 | |
| IRS2 | 13 | 110437087 | 11.63 | 13.08 | −1.45 | 0.028 | 31217032 | |
| IRS2 | 13 | 110437084 | 15.27 | 16.85 | −1.58 | 0.050 | 31217032 | |
| KCNN4 | 19 | 44278629 | cg22904711 | 64.02 | 64.14 | −0.13 | 0.720 | 31217032; 31843015; 25129075 |
| KCNN4 | 19 | 44278625 | 61.14 | 61.79 | −0.66 | 0.310 | 31217032; 31843015; 25129075 | |
| MAP4K1 | 19 | 39087136 | cg02798280 | 98.87 | 98.60 | 0.27 | 0.303 | 31217032; 31775875; 31477183 |
| MAP4K1 | 19 | 39087130 | 96.22 | 96.29 | −0.06 | 0.773 | 31217032; 31775875; 31477183 | |
| NXN | 17 | 800085 | cg02273477 | 76.85 | 75.65 | 1.20 | 0.164 | 31843015 |
| NXN | 17 | 800086 | 78.35 | 76.55 | 1.81 | 0.001 | 31843015 | |
| PAX3 | 2 | 223154176 | cg23077820 | 45.39 | 44.20 | 1.19 | 0.216 | 31217032 |
| PAX3 | 2 | 223154174 | 37.32 | 36.36 | 0.97 | 0.293 | 31217032 | |
| PAX3 | 2 | 223154172 | 30.63 | 30.73 | −0.10 | 0.750 | 31217032 | |
| PAX3 | 2 | 223154169 | 39.34 | 38.84 | 0.49 | 0.555 | 31217032 | |
| RHBDF2 | 17 | 74467829 | cg06491139 | 92.92 | 93.48 | −0.55 | 0.117 | 31775875 |
| RHBDF2 | 17 | 74467834 | 94.10 | 94.25 | −0.16 | 0.088 | 31775875 | |
| RHBDF2 | 17 | 74467837 | 92.11 | 91.94 | 0.17 | 0.716 | 31775875 | |
| RHOB | 2 | 20648194 | cg16258854 | NA | NA | NA | NA | 31217032; 34112773 |
| SIX3 | 2 | 45171097 | cg04797742 | 65.19 | 67.06 | −1.88 | 0.136 | 31843015 |
| TREM2 | 6 | 41129751 | 9.38 | 10.49 | −1.11 | 0.053 | 28412600 | |
| TREM2 | 6 | 41129736 | 26.29 | 28.17 | −1.88 | 0.030 | 28412600 | |
| TREM2 | 6 | 41129712 | 30.77 | 33.06 | −2.29 | 0.007 | 28412600 | |
| TREM2 | 6 | 41129686 | 18.55 | 18.94 | −0.38 | 0.649 | 28412600 | |
| TREML2 | 6 | 41159608 | cg03526776 | 30.05 | 33.39 | −3.34 | 0.001 | 34461811 |
Abbreviations: Δ = delta-value; AD = Alzheimer disease; ID = identification; Each CpG site was annotated by UCSC hg19 build; PMID = PubMed Identification; NA = not amplified.
The table shows 44 CpG sites with beta difference (delta) values.