Table 4.
The top 44 SNPs from the APOL1 interaction analysis
| Marker | CHR | Nearest Gene | Lowest p-value | Model | OR (95% CI) |
|---|---|---|---|---|---|
| rs16854341 | 1q25.2 | NPHS2 | 0.0001 | Add | 0.39(0.24–0.64) |
| rs7986369 | 13q14.2 | 53.666 kb from SUCLA2 | 0.0002 | Dom | 0.27(0.14–0.55) |
| rs10191412 | 22p21 | PRKCE | 0.0005 | Add | 2.22(1.42–3.48) |
| rs9533534 | 13q14.11 | ENOX1 | 0.0005 | Rec | 0.31(0.16–0.60) |
| rs12670380 | 7p22.3 | 9.03 kb from SNX8 | 0.0006 | Add | 0.5(0.33–0.74) |
| rs4273707 | 6q23.2 | 1.223 kb from LOC285735 | 0.0008 | Add | 2.09(1.36–3.20) |
| rs11138082 | 9q21.31 | 447.19 kb from TLE4 | 0.0009 | Rec | 0.12(0.04–0.42) |
| rs1012018 | 7q21.11 | CACNA2D1 | 0.0012 | Add | 3.76(1.68–8.38) |
| rs7689126 | 4p15.1 | None within 500 kb | 0.0016 | Dom | 3.22(1.56–6.65) |
| rs2239785 | 22q12.3 | APOL1 | 0.0018 | Add | 0.14(0.04–0.49) |
| rs1286005 | 6p25.1 | 61.376 kb from RREB1 | 0.0022 | Dom | 2.41(1.37–4.22) |
| rs10516481 | 4q21 | 52.771 kb from BANK1 | 0.0024 | Add | 0.43(0.25–0.74) |
| rs12988998 | 2p24.2 | 222.741 kb from RAD51AP2 | 0.0024 | Rec | 0.39(0.22–0.72) |
| rs7810220 | 7p12.1 | 380.915 kb from POM121L12 | 0.0025 | Add | 2.23(1.33–3.74) |
| rs7046901 | 9p21.3 | 98.072 kb from MLLT3 | 0.0031 | Add | 1.83(1.23–2.73) |
| rs11776207 | 8p12 | 188.145 kb from DUSP26 | 0.0034 | Rec | 0.37(0.19–0.72) |
| rs1668565 | 15q15.1 | 3.554 kb from PLA2G4E | 0.0036 | Rec | 0.42(0.24–0.75) |
| rs8014363 | 14q22.2 | 8.022 kb from BMP4 | 0.0038 | Dom | 2.23(1.30–3.84) |
| rs8063251 | 16p13.3 | 437.089 kb from A2BP1 | 0.004 | Dom | 0.45(0.26–0.78) |
| rs392702 | 19q13.12 | NPHS1 | 0.004 | Dom | 0.44(0.26–0.77) |
| rs6754952 | 2q37.1 | 2.196 kb from C2orf52 | 0.0041 | Rec | 0.42(0.23–0.76) |
| rs118501747 | 14q31.1 | NRXN3 | 0.0044 | Rec | 0.17(0.05–0.58) |
| rs6494167 | 15q22.2 | 137.206 kb from FOXB1 | 0.0044 | Rec | 3.64(1.50–8.84) |
| rs4457349 | 8q24.13 | 43.674 kb from TRIB1 | 0.0045 | Add | 0.57(0.39–0.84) |
| rs437168 | 19q13.12 | NPHS1 | 0.0048 | Rec | 0.39(0.21–0.75) |
| rs11193608 | 10q25.1 | None within 500 kb | 0.0049 | Rec | 0.35(0.17–0.73) |
| rs9510171 | 13q12.11 | None within 500 kb | 0.0055 | Add | 1.95(1.22–3.13) |
| rs1586171 | 8p21.2 | 174.243 kb from STC1 | 0.0058 | Dom | 2.28(1.27–4.09) |
| rs11206061 | 1p32.3 | SCP1 | 0.0058 | Dom | 2.25(1.26–3.99) |
| rs11081516 | 18q23 | 24.12 kb from SALL3 | 0.0063 | Add | 2.05(1.23–3.43) |
| rs5998876 | 22q12.3 | LARGE | 0.0063 | Rec | 0.26(1.10–0.68) |
| rs7897598 | 10q26.13 | 164.946 kb from GPR26 | 0.0065 | Add | 1.81(1.18–2.78) |
| rs1344431 | 13q13.2 | 1.743 kb from NBEA | 0.007 | Add | 0.59(0.41–0.87) |
| rs12587505 | 14q12 | LOC728755 | 0.0071 | Add | 0.59(0.40–0.86) |
| rs11630183 | 15q26.3 | PCSK6 | 0.0075 | Add | 0.59(0.41–0.87) |
| rs1877354 | 16q22.3 | 445.53 kb from PSMD7 | 0.0077 | Dom | 2.67(1.30–5.48) |
| rs2802723 | 1q43 | SDCCAG8 | 0.0082 | Add | 2.03(1.20–3.42) |
| rs10253361 | 7q31.32 | 237.929 kb from PTPRZ1 | 0.0085 | Dom | 0.48(0.28–0.83) |
| rs4404222 | 2q24.1 | 11.134 kb from ACVR1 | 0.0085 | Dom | 2.07(1.20–3.57) |
| rs10517893 | 4q13.1 | None within 500 kb | 0.009 | Dom | 0.48(0.28–0.83) |
| rs1882646 | 2p25.1 | 20.273 kb from KCNF1 | 0.0091 | Add | 1.79(1.16–2.78) |
| rs436346 | 2q36.1 | 51.408 kb from ACSL3 | 0.0098 | Add | 2.07(1.19–3.59) |
| rs9804790 | 12p12.3 | 115.805 kb from PLEKHA5 | 0.0098 | Add | 0.6(0.41–0.88) |
| rs2317446 | 13q34 | 26.679 kb from C13orf35 | 0.0098 | Rec | 0.21(0.06–0.68) |
All SNPs listed in this table are P < 0.01. The most associated genetic model is shown with the corresponding p-value
CHR = chromosomal location, OR = odds ratio, CI = confidence interval; kb, kilobase; Dom = dominant model, Rec = recessive model; Add = additive model; SNP, single-nucleotide polymorphism