Table 3 of Gibson, Mol Vis 2012; 18:1083-1092.

Table 3. Results for the top hit in the POAG GWAS discovery sample, and all nominally significant replication results.




Phenotype


SNP


Location

Nearest
gene(s)		 Frequency of allele 1
in discovery cases,
controls, (allele2)/Qtrait
mean direction		 Frequency of allele 1
in replication cases,
controls, (allele2)/Qtrait
mean direction

Discovery
p-value

Replication
p-value
Most significant GWAS region
POAG rs11961171 chr6:11384014 NEDD9 A=0.1158, 0.05332 (G) A=0.04762, 0.06 (G) 8.55E-13 0.5974
POAG rs967473 chr6:11437409 NEDD9 A=0.1899, 0.1407 (G) A=0.1382, 0.15 (G) 0.000167 0.7538
POAG rs9366868 chr6:11811486 C6orf105 A=0.3329, 0.4098 (G) A=0.4041, 0.49 (G) 2.59E-05 0.1074
Significant at replication
avCCT rs17128941 chr14:92754850 C14orf130 (UBR7) T->C increasing CCT T->C increasing CCT 5.52E-06 0.02743
avCDR rs4385494 chr8:136919236 KHDRBS3 T->G increasing CDR T->G increasing CDR 4.51E-05 0.02937
HTG rs4237260 chr9:75931236 RORB C=0.3199, 0.233 (G) C=0.206, 0.35 (G) 4.98E-07 0.001949*
NTG rs7785999 chr7:32427787 PDE1C, LSM5 A=0.2692, 0.1467 (C) A=0.09483, 0.1939 (C) 9.22E-05 0.02932*

This table gives the results of the most significant SNPs in the discovery sample and all nominally significant (p<0.05) results in the replication sample, including allele frequencies for risk analyses and direction of effect for quantitative trait analyses. *The effect is in opposite directions in the discovery and replication samples.

Gibson, Mol Vis 2012; 18:1083-1092. http://www.molvis.org/molvis/v18/a115

©2012 Molecular Vision http://www.molvis.org/molvis/

ISSN 1090-0535