Table 1. The prioritization of the medically relevant alleles with penalty factors.

The numbers of the genetic variants or allelotypes with non-zero coefficient values are shown for the selected four traits. The denominator represents the total number of variables included in the model. The numerator represents the number of the medically relevant alleles, which are one of the following: protein-truncating variants, protein-altering variants, imputed HLA allelotypes, the pathogenic or likely-pathogenic variants in the ClinVar database. The enrichment of the medically relevant variants is also shown.

Trait	Number of selected genetic variants or allelotypes
	with penalty factor	without penalty factor	enrichment
Standing height	4187 / 51209	2129 / 55937	2.15
Body mass index	2543 / 27126	977 / 28667	2.75
High cholesterol	969 / 5987	215 / 5506	4.14
Asthma	1022 / 6430	250 / 6819	4.34