Table 3.
P-values/q values (effective alleles) for the replicable regulatory effects of disease-risk SNPs on different cortical surface area (SA) and thickness (TH)
| SA | TH | TH | |||||
|---|---|---|---|---|---|---|---|
| SNP | Position | Risk allele | Sharing phenotypes | Target region | ENIGMA3 | ENIGMA3 | UKBB |
| rs2299657 | 2036217 | G | Bipolar disorder_AA/Parkinson’s disease_EA | Temporal pole | 0.048 (T)↓ | 0.024 (T)↓ | |
| rs2239131 | 2099320 | G | Nicotine dependence_AA/Major depressive disorder_EA | Lateral orbitofrontal | 0.033 (A)↓ | 0.036 (G)↑ | 0.044 (G)↑ |
| rs2238072 | 2326968 | T | Schizophrenia_EA/Bipolar disorder_EA | Frontal pole | 0.033 (C)↓ | 0.018 (T)↑ | |
| rs2238072 | 2326968 | T | Schizophrenia_EA/Bipolar disorder_EA | Lateral occipital | 0.039 (T)↑ | 0.007/0.028 (C)↓ | |
| rs2239079 | 2421079 | A | Schizophrenia_AA/Bipolar disorder_EA | Bankssts | 0.022 (G)↓ | 0.012 (G)↓ | |
| rs17801265 | 2468876 | A | Schizophrenia_EA/Alcoholism_EA | Temporal pole | 7.8 × 10-3 (A)↑ | 0.015 (A)↑ | |
| rs17801265 | 2468876 | A | Schizophrenia_EA/Alcoholism_EA | Entorhinal | 0.024 (G)↓ | 0.012 (A)↑ | |
| rs10848680 | 2635439 | G | Nicotine dependence_EA/Bipolar disorder_EA | Fusiform | 0.030 (A)↓ | 0.024 (G)↑ |
EA, European–Americans; AA, African–American; Bankssts, banks of the superior temporal sulcus. ↑, the effect allele consistent with the risk allele; ↓, the effect allele opposite to the risk allele. Bold P value/q value corresponds to q < 0.05.