Table 3.
Summary of the identified non-group-discriminating single nucleotide polymorphisms
| Gene | Contributing SNPs
|
Correlation test
|
|||||||
|---|---|---|---|---|---|---|---|---|---|
| SNP | Z-score | GD (p-value) | MAF (SZ) | MAF (HC) | SNP_LD | Gene (SNP_corr) | GD (SNP_corr) | LD (r/p) | |
| BCR | rs5759636 | 2.32 | 0.57 | 0.14 | 0.15 | rs1896796 | SH3GL3 | 1.71E-04 | 0.23/6.67E-04 |
| BDNF | rs962369 | 2.08 | 0.75 | 0.27 | 0.30 | rs16855939 | C2orf48 | 4.54E-03 | 0.21/2.53E-03 |
| COMT | rs174699 | −1.91 | 0.24 | 0.05 | 0.08 | rs2297060 | STXBP6 | 2.22E-03 | 0.25/2.30E-04 |
| COMT | rs174696 | −1.92 | 0.50 | 0.27 | 0.25 | SNP2-102328778 | - | 1.73E-03 | 0.26/1.20E-04 |
| DISC1 | rs6541290 | −2.44 | 0.09 | 0.10 | 0.16 | rs9432024 | DISC1 | 1.44E-03 | −0.32/1.67E-06 |
| DNMT1 | rs721186 | 1.96 | 0.29 | 0.01 | 0.00 | rs17265803 | - | 2.74E-03 | 0.27/6.57E-05 |
| DRD3 | rs9828046 | −1.91 | 0.89 | 0.03 | 0.03 | rs4968678 | SCN4A | 3.30E-03 | 0.36/6.35E-08 |
| ERBB4 | rs11679952 | −2.28 | 0.47 | 0.30 | 0.36 | rs11639294 | - | 3.61E-03 | −0.23/8.18E-04 |
| ERBB4 | rs13392330 | 1.97 | 0.43 | 0.15 | 0.09 | rs1558789 | - | 1.86E-03 | 0.27/1.06E-04 |
| ERBB4 | rs872199 | 2.23 | 0.33 | 0.01 | 0.00 | rs12418045 | AMOTL1 | 1.43E-03 | 0.39/8.79E-09 |
| ESR1 | rs3798577 | 2.31 | 0.28 | 0.47 | 0.41 | rs7960152 | - | 2.03E-03 | −0.23/7.61E-04 |
| ESR1 | rs3798758 | −2.05 | 0.72 | 0.07 | 0.07 | rs12899474 | - | 3.53E-03 | 0.26/1.60E-04 |
| GABRA4 | rs1512130 | 2.23 | 0.27 | 0.35 | 0.30 | rs10009955 | - | 2.18E-03 | 0.27/6.86E-05 |
| GABRA4 | rs6844842 | 1.95 | 0.74 | 0.46 | 0.45 | rs10088262 | - | 2.46E-03 | −0.22/1.27E-03 |
| GAD1 | rs769406 | 2.42 | 0.27 | 0.03 | 0.01 | rs7675915 | - | 9.22E-04 | 0.27/5.95E-05 |
| GRID2 | rs6855368 | 2.00 | 0.03 | 0.54 | 0.40 | rs1748041 | PADI4 | 1.14E-03 | 0.25/2.68E-04 |
| GRID2 | rs4374594 | 1.96 | 0.01 | 0.29 | 0.19 | rs9564266 | - | 1.23E-03 | −0.27/8.32E-05 |
| HTR7 | rs17526697 | −2.09 | 0.66 | 0.10 | 0.10 | rs2088077 | WDR70 | 2.61E-03 | −0.24/6.09E-04 |
| NOTCH4 | rs8192587 | 1.96 | 0.06 | 0.02 | 0.00 | rs3846513 | - | 3.46E-03 | 0.30/7.74E-06 |
| NRG1 | rs7827456 | −1.96 | 0.05 | 0.38 | 0.40 | rs10503899 | NRG1 | 2.99E-03 | −0.50/1.32E-14 |
| NRG3 | rs10490933 | 3.06 | 0.94 | 0.01 | 0.00 | rs1520043 | - | 4.89E-03 | 0.30/1.49E-05 |
| NRG3 | rs11192642 | 2.69 | 0.20 | 0.02 | 0.00 | rs16914526 | SNTG1 | 3.18E-03 | 0.48/1.89E-13 |
| NRG3 | rs11195073 | 2.06 | 0.24 | 0.13 | 0.09 | rs7858370 | EPB41L4B | 4.94E-03 | 0.25/2.62E-04 |
| NRG3 | rs17099528 | 2.33 | 0.20 | 0.03 | 0.00 | rs2181184 | - | 1.94E-04 | −0.35/3.06E-07 |
| NRG3 | rs652183 | −2.01 | 0.74 | 0.47 | 0.53 | rs600488 | - | 3.23E-03 | 0.25/3.06E-04 |
| NRG3 | rs660464 | −2.03 | 0.73 | 0.47 | 0.53 | rs600488 | - | 3.23E-03 | 0.26/1.44E-04 |
| WNT2 | rs4727847 | 2.66 | 0.05 | 0.51 | 0.41 | rs985574 | - | 2.27E-03 | 0.23/1.02E-03 |
| WNT2 | rs2896218 | −2.33 | 0.40 | 0.39 | 0.44 | rs965281 | - | 1.85E-03 | 0.24/3.97E-04 |
| WNT2 | rs4730775 | 2.26 | 0.11 | 0.49 | 0.41 | rs13139804 | ATP10D | 2.46E-03 | −0.24/4.99E-04 |
| WNT2 | rs6947329 | 2.08 | 0.64 | 0.42 | 0.40 | rs342096 | - | 3.46E-03 | −0.25/3.14E-04 |
| WNT2 | rs916725 | −2.24 | 0.24 | 0.36 | 0.43 | rs965281 | - | 1.85E-03 | 0.21/2.03E-03 |
Note: Z-score refers to the normalized component weight and GD refers to the group difference between SZ patients and healthy controls in terms of MAF. In correlation tests, SNP_corr reports the group-discriminating SNP exhibiting the highest correlation with the tested non-group-discriminating SNP and the corresponding correlation and p-value are also included.