Table 4.
Cross-significance of top SNPs for retinal pathology characterized by pre-retinal neovascular disease including ROP and diabetic retinopathy (GOLDR).
| Gene | SNP | Chr | position | GOLDR | ROP | ||||
|---|---|---|---|---|---|---|---|---|---|
| odds ratio | P-value | Odds ratio | P-value | P-value Hispanic | LD relative to bolded SNP (r2) | ||||
| GLI3 | rs74527981 | 7 | 42205730 | 2.22 | 9.3E-04 | Na | Na | 0.068 | 0.0006 |
| rs17172024 | 7 | 42210112 | 2.22 | 9.3E-04 | Na | Na | 0.15 | 0.0006 | |
| rs2058019 | 7 | 42187113 | ns | Ns | 1.27 | 4.90E-09 | 2.95E-06 | - | |
| CLDN12 | No loci associated with DR for whole region | ||||||||
| DEF8, TUBB3 | No loci associated with DR for whole region | ||||||||
| DCLK1 | rs35596426 | 13 | 36452952 | 5.18 | 4.3E-04 | Na | Na | Na | 0.007 |
| rs9576059 | 13 | 36452266 | 4.83 | 5.9E-04 | Na | Na | Na | 0.007 | |
| rs61948265 | 13 | 35984893 | ns | Ns | 1.14 | 6.50E-07 | 4.64E-05 | - | |
| SP4 | rs11770747 | 7 | 21552122 | 1.96 | 7.6E-04 | Ns | Ns | 0.20 | 0.02 |
| rs78539005 | 7 | 21547126 | 2.51 | 8.5E-04 | 1.09 | 0.03 | 0.18 | 0.002 | |
| rs141411503 | 7 | 21425951 | ns | Ns | 1.21 | 8.38E-07 | 3.55E-04 | - | |
| ARHGEF7 | No loci associated with DR for whole region | ||||||||
| PTPRD | rs79715438 | 9 | 8809579 | 3.48 | 5.0E-04 | Na | Na | Na | 0.02 |
| rs75240118 | 9 | 8809921 | 3.48 | 5.0E-04 | Na | Na | Na | 0.02 | |
| rs80041124 | 9 | 8810631 | 3.48 | 5.0E-04 | Na | Na | Na | 0.02 | |
| rs76777639 | 9 | 8488087 | 3.30 | 9.6E-04 | Na | Na | Na | 0.0001 | |
| rs529032346 | 9 | 8499029 | 3.30 | 9.6E-04 | Na | Na | Na | 0 | |
| rs9644892 | 9 | 8800078 | ns | Ns | 1.1 | 2.14E-06 | 2.86E-05 | - | |
| DPP4 | No loci associated with DR for whole region | ||||||||
| RPL30, RIDA | rs2514337 | 8 | 98113613 | 0.49 | 5.4E-04 | 0.94 | 4.4E-04 | 0.22 | 0.33 |
| rs2447504 | 8 | 98113678 | 0.49 | 5.4E-04 | 0.94 | 4.4E-04 | 0.22 | 0.33 | |
| rs2306129 | 8 | 98093498 | 0.66 | 0.04 | 1.09 | 3.77E-06 | 0.0078 | - | |
| PRPF4B | No loci associated with DR for whole region | ||||||||
Bolded SNP identifiers indicate the SNP used for comparison for the LD calculation.
ns not significant, na association tests not applicable for SNPs with MAF less than 0.05, LD linkage disequilibrium.