Table 1.

Loci associated with DKD at study-wide (P<6.76×10−9, see bolding) and genome-wide (P<5×10−8) significance

SNPChr:posEffect AlleleOther AlleleEAFNotable Gene(s)PhenotypeORminP ValueminORfullP Valuefull
Common Variants
rs557037672:228121101TG0.206COL4A3 (M, B, N)DN0.795.34×10–120.788.19×10−11
All versus ctrl0.833.88×10−100.849.68×10−9
CKD+DN0.775.30×10−90.763.77×10−8
Macro0.789.28×10−90.779.38×10−9
rs126159702:3745215GA0.133COLEC11 (B) ALLC (N, G)CKD0.769.43×10−90.771.60×10−7
rs1428232823:11910635GA0.011TAMM41 (N, B)Micro6.738.32×10−109.181.13×10−11
rs1456811684:174500806GA0.014HAND2-AS1 (N, G, B)Micro5.532.06×10−77.475.40×10−9
rs1181248436:30887465TC0.011DDR1 (B) VARS2 (G)Micro3.794.42×10−83.993.37×10−8
rs5511917078:128100029CAC0.122PRNCR1 (N)ESKD versus macro1.704.39×10−81.713.15×10−6
rs6198341014:26004712TC0.213STXBP6 (N)Micro0.799.84×10−80.783.06×10−8
rs14443440420:55837263TC0.011BMP7 (N, G, B)Micro6.782.67×10−96.664.65×10−9
Uncommon Variants
rs1150611733:926345AT0.014LINC01266 (N)ESKD versus ctrl9.404.07×10−88.344.08×10−5
rs1162160593:36566312AC0.016STAC (N, G)ESKD versus non-ESKD8.731.37×10−811.781.41×10−4
rs1914496394:71358776AT0.005MUC7 (N)DN32.421.32×10−832.472.09×10−8
rs1496418525:121774582TG0.012SNCAIP (N, G)CKD extreme9.011.37×10−8
rs772730767:99728546TC0.008MBLAC1 (N)Micro9.161.04×10−87.102.28×10−7
rs18393729411:16937846GT0.007PLEKHA7 (N, G)Micro17.221.65×10−823.622.10×10−6
rs11355420614:73740250AG0.012PAPLN (N, G)Macro4.605.39×10−710.428.46×10−9
rs18529910918:1811108TC0.007intergenicCKD20.751.28×10−844.754.99×10−7
  • 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.