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Table 2 The resulting ranking based on the expected relative feature contribution (ERFC) from the ranking process for hyperparameter set 2 in Table 1

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

Feature

ERFC

Sex

0.12

Alcohol intake frequency

0.12

Physical activity

0.11

Saturated fat intake

0.058

Stressful events

0.056

Sleep duration

0.049

Age at initial assessment

0.047

rs17817449 (FTO, Chr. 16)

0.025

rs1421085 (FTO, Chr. 16)

0.025

rs1121980 (FTO, Chr. 16)

0.024

rs7202116 (FTO)

0.023

rs9941349 (FTO)

0.023

rs9940128 (FTO)

0.023

rs9922619 (FTO)

0.023

rs13393304 (FAM150B - TMEM18, Chr. 2)

0.022

rs12149832 (FTO)

0.021

rs9939609 (FTO)

0.021

rs9930506 (FTO)

0.021

rs11642841 (FTO)

0.020

rs2947411 (Chr. 2)

0.019

  1. The environmental features are, as expected, considered more important than the SNPs, while the most important SNPs are at or nearby the FTO gene in agreement with previous studies