Comparison of the Accuracy of Epistasis and Haplotype Models for Genomic Prediction of Seven Human Phenotypes.

ABSTRACT: The accuracy of predicting seven human phenotypes of 3657-7564 individuals using global epistasis effects was evaluated and compared to the accuracy of haplotype genomic prediction using 380,705 SNPs and 10-fold cross-validation studies. The seven human phenotypes were the normality transformed high density lipoproteins (HDL), low density lipoproteins (LDL), total cholesterol (TC), triglycerides (TG), weight (WT), and the original phenotypic observations of height (HTo) and body mass index (BMIo). Fourth-order epistasis effects virtually had no contribution to the phenotypic variances, and third-order epistasis effects did not affect the prediction accuracy. Without haplotype effects in the prediction model, pairwise epistasis effects improved the prediction accuracy over the SNP models fo

SUBMITTER: Liang Z 

PROVIDER: S-EPMC10604971 | biostudies-literature | 2023 Oct

REPOSITORIES: biostudies-literature