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Table 1 SNPs associated with serum urate levels and habitual coffee intake in previous GWAS using participants of European ancestry

From: Mediation analysis to understand genetic relationships between habitual coffee intake and gout

   GCKR ABCG2 MLXIPL CYP1A2
Coffee GWAS [20] SNP rs1260326 rs1481012 rs7800944 rs2472297
Chr: Position (B37) 2:27730940 4:89039082 7:73035857 15:75027880
Effect allele/other T/C A/G T/C T/C
Effect allele freq. 0.41 0.89 0.72 0.24
Beta (cups/day) −0.04 0.06 −0.05 0.15
SE 0.01 0.01 0.01 0.01
P 1.06 × 10−7 1.13 × 10−6 7.82 × 10−9 6.45 × 10−47
Urate GWAS [2] SNP rs1260326 rs2231142 rs1178977 rs2472297
Chr: Position (B37) 2:27730940 4:89271347 7:72494985 15:75027880
Effect allele/other T/C G/T A/G T/C
Effect allele freq. 0.41 0.89 0.81 0.24
Beta (mg/dl) 0.07 −0.22 0.05 −0.03
SE 0.01 0.01 0.01 0.01
P 1.20 × 10−44 1.00 × 10−134 1.20 × 10−12 3.85 × 10−6
LD Euro r2 Same SNP 0.94 0.58 Same SNP
  rs2231142: T rs1178977: G  
  rs1481012: G rs7800944: C  
UKBB r2 Same SNP 0.99 0.57 Same SNP
  rs2231142: T rs1178977: G  
  rs1481012: G rs7800944: C  
  1. Linkage disequilibrium calculated using 1000 Genomes phase 3 (September 2014) data
  2. Chr chromosome, Euro European from 1000 Genomes, Freq frequency, GWAS genome-wise association study, LD linkage disequilibrium, SE standard error, SNP single nucleotide polymorphism, UKBB UK Biobank