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Table 2 Top ten SNPs identified by two-component test of interaction with E-alone or E+P

From: Exploring the interaction between SNP genotype and postmenopausal hormone therapy effects on stroke risk

Rank Rs# Chr Position Allele MAF OR Marginal association test P-value HT interaction P-value HT interaction FDR E-alone interaction P-value E+P interaction P-value Gene
1 2154299 6 6231297 A/G 0.09 1.18 0.0299 0.00015 0.015 0.08111 0.00013 F13A1
2 12194855 6 6233241 G/A 0.09 1.19 0.0265 0.00026 0.015 0.10080 0.00020 F13A1
3 630431 1 55299911 G/A 0.34 0.91 0.0498 0.00068 0.025 0.01660 0.00291 PCSK9
4 568052 1 55297430 G/A 0.34 0.90 0.0450 0.00151 0.042 0.01939 0.00610 PCSK9
5 10028444 4 88654846 A/G 0.17 1.13 0.0482 0.03593 0.715 0.15318 0.03175 SPARCL1
6 1381633 4 88687876 G/A 0.23 1.12 0.0436 0.04131 0.715 0.05512 0.10068 SPARCL1
7 243842 16 54084923 C/T 0.39 0.87 0.0041 0.04671 0.715 0.02295 0.32839 MMP2
8 2817247 6 24580402 A/G 0.10 1.18 0.0227 0.05315 0.715 0.37301 0.02427 GPLD1
9 1982049 9 1.16E+08 T/G 0.36 1.10 0.0411 0.05747 0.715 0.03309 0.27896 AMBP
10 6413453 1 1.59E+08 A/G 0.11 0.86 0.0490 0.09972 0.881 0.78264 0.03322 APOA2
  1. Rank, rank of SNPs based on HT interaction test with two degrees of freedom. Rs#, SNP identification (rs) number in dbSNP database. Chr, chromosome. Allele, minor/major allele. MAF, minor allele frequency in the study population. OR, odds ratio for increase of per minor allele. Marginal association test P-value, P-value based on test of SNP main effect assuming additive effect. HT interaction P-value: P-value based on two degrees of freedom joint test for interaction with HT. HT interaction FDR, FDR based on two degrees of freedom joint test for interaction with HT. E-alone interaction P-value, P-value based on test for interaction with E-alone. E+P interaction P-value, P-value based on test for interaction with E+P.