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Table 1 Overview about the six risk SNPs (Design 1) included in the simulation study

From: Detection of gene-environment interactions in the presence of linkage disequilibrium and noise by using genetic risk scores with internal weights from elastic net regression

Mean OR(GxE) SNP MAF OR (G) p-value (G) OR (E) p-value (E) OR (GxE) p-value (GxE)
1.01 CFHrs1061170 0.50 1.32 <0.001 1.03 <0.001 1.01 0.020
LOCrs10490924 0.33 1.76 <0.001 1.03 <0.001 1.01 0.002
CFHrs1410996 0.30 1.32 <0.001 1.03 <0.001 1.01 0.075
C2rs9332739 0.07 3.08 <0.001 1.03 <0.001 1.01 0.422
CFBrs641153 0.12 1.13 0.134 1.03 <0.001 1.03 0.001
CFHrs2230199 0.27 1.28 <0.001 1.03 <0.001 1.01 0.082
1.04 CFHrs1061170 0.50 1.32 <0.001 1.05 <0.001 1.02 <0.001
LOCrs10490924 0.33 1.76 <0.001 1.05 <0.001 1.04 <0.001
CFHrs1410996 0.30 1.32 <0.001 1.05 <0.001 1.02 0.001
C2rs9332739 0.07 3.08 <0.001 1.05 <0.001 1.03 0.248
CFBrs641153 0.12 1.13 0.134 1.05 <0.001 1.06 <0.001
CFHrs2230199 0.27 1.28 <0.001 1.05 <0.001 1.06 <0.001
1.05 CFHrs1061170 0.50 1.32 <0.001 1.12 <0.001 1.03 <0.001
LOCrs10490924 0.33 1.76 <0.001 1.12 <0.001 1.05 <0.001
CFHrs1410996 0.30 1.32 <0.001 1.12 <0.001 1.03 <0.001
C2rs9332739 0.07 3.08 <0.001 1.12 <0.001 1.06 0.012
CFBrs641153 0.12 1.13 0.134 1.12 <0.001 1.07 <0.001
CFHrs2230199 0.27 1.28 <0.001 1.12 <0.001 1.07 <0.001
  1. Minor allele frequency (MAF), estimated OR and p-values for the main effects of each SNP (G) and environmental factor (E) and gene-environment interaction (GxE) in the dataset from the R-package PredictABEL (n = 10,000), which we extended by a simulated gene-environment interaction term (GxE). For the gene-environment interaction term, we generated a continuous environmental predictor variable E which has a different effect on disease risk in persons with different genotypes of the six independent genetic risk factors