Table 2.
A: Comparison of methylation rates at single-CpG sites in controls and PWS subjects in the intron 1 region. B: Comparison of methylation rates at single-CpG sites in male PWS subjects with psychosis (yes) and without psychosis (no) in the exon 1 region.
| (A) Analyzed CpG | Mean controls | Standard error controls | Mean PWS | Standard error PWS | Difference in means | p-value | F-value |
|---|---|---|---|---|---|---|---|
| m1001 | 17.1% | 2.0% | 9.9% | 1.4% | 7.3% | 0.004 | 9.020 |
| m989 | 19.5% | 1.8% | 15.5% | 1.2% | 4.0% | 0.071 | 3.439 |
| m982 | 24.7% | 2.0% | 23.0% | 1.3% | 1.7% | 0.500 | 0.462 |
| m959 | 12.5% | 1.3% | 8.7% | 0.9% | 3.8% | 0.023 | 5.592 |
| m934 | 51.4% | 2.3% | 50.8% | 1.5% | 0.6% | 0.823 | 0.051 |
| m924 | 64.4% | 1.8% | 62.2% | 1.2% | 2.2% | 0.315 | 1.035 |
| m901 | 80.8% | 1.3% | 77.5% | 0.9% | 3.2% | 0.050 | 4.069 |
| m860 | 66.6% | 1.7% | 64.3% | 1.2% | 2.4% | 0.260 | 1.302 |
| m835 | 42.2% | 2.5% | 41.1% | 1.7% | 1.1% | 0.709 | 0.141 |
| m826 | 23.8% | 2.0% | 22.2% | 1.3% | 1.6% | 0.514 | 0.433 |
| m808 | 30.8% | 1.7% | 27.1% | 1.1% | 3.7% | 0.079 | 3.232 |
| m806 | 30.4% | 2.2% | 25.9% | 1.5% | 4.5% | 0.100 | 2.821 |
| m774 | 31.8% | 2.1% | 31.8% | 1.4% | 0.0% | 0.996 | 0.000 |
| m719 | 40.9% | 2.2% | 39.0% | 1.5% | 2.0% | 0.462 | 0.550 |
| m708 | 15.2% | 1.8% | 9.1% | 1.2% | 6.1% | 0.007 | 7.925 |
| m676 | 21.1% | 1.9% | 11.2% | 1.2% | 9.9% | <0.001 | 19.769 |
| m672 | 12.6% | 1.0% | 6.9% | 0.7% | 5.6% | <0.001 | 22.661 |
| m668 | 10.9% | 1.6% | 6.6% | 1.0% | 4.2% | 0.030 | 5.036 |
| m646 | 11.4% | 1.0% | 4.7% | 0.7% | 6.6% | <0.001 | 30.563 |
| m593 | 14.7% | 1.1% | 7.9% | 0.7% | 6.8% | <0.001 | 26.223 |
| (B) Analyzed CpG | Mean yes | Standard error yes | Mean no | Standard error no | Difference in means | p-value | F-value |
| m1399 | 0.3% | 1.3% | 1.6% | 0.9% | −1.3% | 0.429 | 0.658 |
| m1388 | 2.2% | 0.7% | 2.9% | 0.5% | −0.8% | 0.401 | 0.743 |
| m1383 | 7.0% | 1.9% | 6.6% | 1.3% | 0.4% | 0.868 | 0.028 |
| m1359 | 0.7% | 1.2% | 3.3% | 0.8% | −2.6% | 0.082 | 3.426 |
| m1345 | 3.8% | 1.4% | 5.8% | 1.0% | −1.9% | 0.279 | 1.251 |
| m1339 | 2.7% | 1.1% | 5.7% | 0.8% | −3.0% | 0.043 | 4.764 |
| m1335 | 1.8% | 1.2% | 3.6% | 0.8% | −1.8% | 0.238 | 1.498 |
| m1312 | 3.3% | 1.1% | 5.5% | 0.8% | −2.1% | 0.138 | 2.421 |
| m1285 | 2.7% | 1.0% | 3.7% | 0.7% | −1.0% | 0.399 | 0.748 |
| m1283 | 6.3% | 1.3% | 8.3% | 0.9% | −2.0% | 0.218 | 1.638 |
| m1281 | 4.7% | 1.1% | 7.5% | 0.7% | −2.8% | 0.048 | 4.522 |
| m1279 | 7.0% | 1.5% | 9.6% | 1.0% | −2.6% | 0.165 | 2.102 |
| m1258 | 6.2% | 1.6% | 9.1% | 1.1% | −2.9% | 0.159 | 2.175 |
| m1254 | 1.8% | 1.9% | 3.8% | 1.3% | −1.9% | 0.400 | 0.745 |
| m1234 | 5.7% | 1.4% | 8.0% | 0.9% | −2.3% | 0.172 | 2.028 |
| m1219 | 1.8% | 0.6% | 1.7% | 0.4% | 0.1% | 0.850 | 0.037 |
| m1201 | 13.3% | 2.2% | 15.8% | 1.5% | −2.5% | 0.348 | 0.932 |
| m1154 | 7.3% | 2.6% | 12.4% | 1.7% | −5.1% | 0.123 | 2.640 |
| m1136 | 3.3% | 1.5% | 4.9% | 1.0% | −1.6% | 0.396 | 0.759 |
| m1131 | 14.0% | 3.1% | 14.5% | 2.1% | −0.5% | 0.888 | 0.020 |
| m1125 | 23.8% | 3.0% | 28.5% | 2.0% | −4.7% | 0.208 | 1.717 |
| m1121 | 13.7% | 1.7% | 18.3% | 1.2% | −4.6% | 0.041 | 4.879 |
| m1119 | 8.8% | 2.0% | 10.8% | 1.3% | −2.0% | 0.414 | 0.702 |
| m1107 | 3.2% | 1.7% | 5.4% | 1.1% | −2.2% | 0.287 | 1.209 |
| m1100 | 18.0% | 2.4% | 23.6% | 1.7% | −5.6% | 0.075 | 3.601 |
| m1097 | 21.0% | 2.8% | 26.3% | 1.9% | −5.3% | 0.136 | 2.455 |
Bold entries represent CpG sites with a significant difference (p < 0.05).
Significant differences in methylation rates between controls and PWS subjects could be detected at CpGs m1001, m959, m901, m708, m676, m672, m668, m646, and m593.
Significantly lower methylation rates in subjects with a history of psychosis could be detected at CpG m1339, m1281, and m1121.