Table 2.
Discovery, replication and combined significance of CNV regions
| CNVR (hg18) | Discovery P | Replication P | Combined P | Permuted discovery P |
Permuted replication P |
Permuted combined P |
Type | Gene |
|---|---|---|---|---|---|---|---|---|
| chr11: 88,269,449–88,351,661 | 1.53 × 10−3 | 5.29 × 10−4 | 1.36 × 10−6 | 0.025 | 0.001 | 0.002 | Del | GRM5 |
| chr7: 126,441,593–126,621,501 | 7.74 × 10−3 | 4.35 × 10−4 | 3.52 × 10−6 | 0.013 | <0.001 | <0.001 | Del | GRM8 |
| chr3: 7,183,953–7,197,236 | 1.53 × 10−3 | 4.53 × 10−2 | 8.14 × 10−5 | 0.011 | 0.039 | <0.001 | Del | GRM7 |
| chr6: 146,657,076–146,694,047 | 4.42 × 10−3 | 9.63 × 10−3 | 1.05 × 10−4 | 0.006 | <0.001 | <0.001 | Dup | GRM1 |
| chr1: 72,317,292–72,328,395 | 1.53 × 10−3 | 2.13 × 10−1 | 3.91 × 10−4 | 0.036 | 0.213 | 0.011 | Dup | NEGR1 |
| chr7: 153,495,598–153,564,827 | 1.53 × 10−3 | 6.82 × 10−2 | 4.08 × 10−4 | <0.001 | 0.058 | <0.001 | Dup | DPP6 |
| chr5: 65,027,976–65,046,520 | 1.53 × 10−3 | 1.17 × 10−1 | 4.68 × 10−4 | 0.003 | 0.108 | 0.001 | Del | SGTB/NLN |
| chr1: 56,053,497–56,064,495 | 3.91 × 10−2 | 2.12 × 10−2 | 1.54 × 10−3 | 0.035 | 0.024 | <0.001 | Del | USP24 |
| chr19: 38,427,720–38,444,834 | 4.42 × 10−3 | 2.89 × 10−1 | 4.95 × 10−3 | 0.002 | 0.262 | 0.007 | Del | SLC7A10 |
| chr3: 1,844,168–1,859,889 | 1.53 × 10−3 | 4.12 × 10−1 | 8.81 × 10−3 | 0.008 | 0.416 | 0.015 | Del | CNTN4 |
| chr2: 81,419,297–81,446,082 | 3.91 × 10−2 | 2.89 × 10−1 | 3.83 × 10−2 | 0.046 | 0.294 | 0.032 | Dup | CTNNA2 |
| chr4: 113,772,340–113,788,584 | 3.91 × 10−2 | 2.89 × 10−1 | 3.83 × 10−2 | 0.033 | 0.288 | 0.042 | Dup | LARP7 |
The top four most significant loci are shown in bold.
Del, deletion; dup, duplication.