Table 1.
Loci associated with DKD at study-wide (P<6.76×10−9, see bolding) and genome-wide (P<5×10−8) significance
| SNP | Chr:pos | Effect Allele | Other Allele | EAF | Notable Gene(s) | Phenotype | ORmin | P Valuemin | ORfull | P Valuefull |
|---|---|---|---|---|---|---|---|---|---|---|
| Common Variants | ||||||||||
| rs55703767 | 2:228121101 | T | G | 0.206 | COL4A3 (M, B, N) | DN | 0.79 | 5.34×10–12 | 0.78 | 8.19×10−11 |
| All versus ctrl | 0.83 | 3.88×10−10 | 0.84 | 9.68×10−9 | ||||||
| CKD+DN | 0.77 | 5.30×10−9 | 0.76 | 3.77×10−8 | ||||||
| Macro | 0.78 | 9.28×10−9 | 0.77 | 9.38×10−9 | ||||||
| rs12615970 | 2:3745215 | G | A | 0.133 | COLEC11 (B) ALLC (N, G) | CKD | 0.76 | 9.43×10−9 | 0.77 | 1.60×10−7 |
| rs142823282 | 3:11910635 | G | A | 0.011 | TAMM41 (N, B) | Micro | 6.73 | 8.32×10−10 | 9.18 | 1.13×10−11 |
| rs145681168 | 4:174500806 | G | A | 0.014 | HAND2-AS1 (N, G, B) | Micro | 5.53 | 2.06×10−7 | 7.47 | 5.40×10−9 |
| rs118124843 | 6:30887465 | T | C | 0.011 | DDR1 (B) VARS2 (G) | Micro | 3.79 | 4.42×10−8 | 3.99 | 3.37×10−8 |
| rs551191707 | 8:128100029 | CA | C | 0.122 | PRNCR1 (N) | ESKD versus macro | 1.70 | 4.39×10−8 | 1.71 | 3.15×10−6 |
| rs61983410 | 14:26004712 | T | C | 0.213 | STXBP6 (N) | Micro | 0.79 | 9.84×10−8 | 0.78 | 3.06×10−8 |
| rs144434404 | 20:55837263 | T | C | 0.011 | BMP7 (N, G, B) | Micro | 6.78 | 2.67×10−9 | 6.66 | 4.65×10−9 |
| Uncommon Variants | ||||||||||
| rs115061173 | 3:926345 | A | T | 0.014 | LINC01266 (N) | ESKD versus ctrl | 9.40 | 4.07×10−8 | 8.34 | 4.08×10−5 |
| rs116216059 | 3:36566312 | A | C | 0.016 | STAC (N, G) | ESKD versus non-ESKD | 8.73 | 1.37×10−8 | 11.78 | 1.41×10−4 |
| rs191449639 | 4:71358776 | A | T | 0.005 | MUC7 (N) | DN | 32.42 | 1.32×10−8 | 32.47 | 2.09×10−8 |
| rs149641852 | 5:121774582 | T | G | 0.012 | SNCAIP (N, G) | CKD extreme | 9.01 | 1.37×10−8 | — | — |
| rs77273076 | 7:99728546 | T | C | 0.008 | MBLAC1 (N) | Micro | 9.16 | 1.04×10−8 | 7.10 | 2.28×10−7 |
| rs183937294 | 11:16937846 | G | T | 0.007 | PLEKHA7 (N, G) | Micro | 17.22 | 1.65×10−8 | 23.62 | 2.10×10−6 |
| rs113554206 | 14:73740250 | A | G | 0.012 | PAPLN (N, G) | Macro | 4.60 | 5.39×10−7 | 10.42 | 8.46×10−9 |
| rs185299109 | 18:1811108 | T | C | 0.007 | intergenic | CKD | 20.75 | 1.28×10−8 | 44.75 | 4.99×10−7 |
Common variants and/or genes with relevant kidney biology are reported in the top half of the table. Uncommon variants (MAF<2%) with no known relevant kidney biology are reported in the bottom half of the table. Genes are annotated as follows: missense variant in the indicated gene (M); intronic, synonymous, or noncoding variant in the indicated gene (G); gene nearest to lead variant (N); gene has relevant kidney (B). Chr, chromosome; pos, position; EAF, effect allele frequency; min, minimally adjusted covariate model; full, fully adjusted covariate model.