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Table 3 The result after running BOLT-LMM on the ranking data showing the top SNPs with smallest p-value from the BOLT-LMM infinitesimal mixed-model statistic

From: A new method for exploring gene–gene and gene–environment interactions in GWAS with tree ensemble methods and SHAP values

Feature

BOLT-LMM p-value

rs1421085 (FTO)

3.7E–57

rs9940128 (FTO)

1.8E–54

rs1121980 (FTO)

2.4E–54

rs3751812 (FTO)

7.0E–54

rs17817449 (FTO)

8.5E–54

rs9939609 (FTO)

1.3E–53

rs8050136 (FTO)

2.2E–53

rs7202116 (FTO)

5.7E–53

rs9941349 (FTO)

5.0E–52

rs12149832 (FTO)

3.0E–50

rs9922619 (FTO)

1.0E–48

rs9930506 (FTO)

1.1E–48

rs11642841 (FTO)

1.3E–40

  1. All top SNPs are connected to the FTO gene