Table 3.
Loci associated with remission of seizures in newly treated epilepsy at Pmeta < 5.0 × 10−7 (with and without adjusting for clinical prognostic factors)
| Index SNP | Imp | Gene | Chr | Position (BP) | Test allele | Ref allele | Test allele freq. (UK) | Test allele freq. (AUS) | Adjusted for clinical prognostic factors |
Unadjusted for clinical prognostic factors |
||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| UK P-value | AUS P-value | Meta P-value | OR (meta) | UK P-value | AUS P-value | Meta P-value | OR (meta) | |||||||||
| rs492146 | Yesa,b | GSTA4 | 6 | 52835895 | G | A | 0.48 | 0.44 | 2.6 × 10−5 | 0.007 | 7.9 × 10−7 | 0.56 | 5.9 × 10−6 | 0.01 | 2.1 × 10−7 | 0.57 |
| rs72700966 | Yes | PTPRD | 9 | 10505224 | C | T | 0.92 | 0.92 | 3.7 × 10−7 | 0.41 | 9.1 × 10−7 | 2.8 | 8.2 × 10−8 | 0.47 | 3.1 × 10−7 | 2.7 |
| rs143536437 | Yesb | ARHGAP11B | 15 | 30898332 | C | T | 0.72 | 0.74 | 4.9 × 10−6 | 0.022 | 3.2 × 10−7 | 1.9 | 2.6 × 10−5 | 0.035 | 2.6 × 10−6 | 1.73 |
SNP, single nucleotide polymorphism; Chr, chromosome; freq, frequency; OR, odds ratio; bp, base-pair; Imp, imputed.
aAdditional genotyped SNPs also exceeded the 5·0 × 10−7 significant threshold.
bAssociation present in both the UK and AUS cohorts independently.
MAF for responders and non-responders for each cohort (UK and AUS) for these SNPs and all SNPs with P < 1.0 × 10−4 are given in Supplementary Material, Table S2.