Genomic prediction based on selective linkage disequilibrium pruning of low-coverage whole-genome sequence variants in a pure Duroc population

Table 6 Prediction accuracy and bias in the validation population for three traits based on BayesR

	CC 50k		CC 80k		GBS		LCS_LD1
	Accuracy	Bias	Accuracy	Bias	Accuracy	Bias	Accuracy	Bias
AGE	0.280	0.847	0.283	0.893	0.269	0.861	0.293	0.882
BF	0.379	0.860	0.389	0.949	0.379	0.885	0.401	1.025
TTN	0.365	0.880	0.363	0.851	0.375	0.884	0.370	0.872

Accuracy was defined as the Pearson correlation between the: GEBV) and phenotypes, while bias was defined as the regression coefficient of phenotypes on GEBV
AGE age to 100 kg live weight, BF back fat thickness, TTN total teat number, CC 80k commercial chip 80k, CC 50k commercial chip 50k, GBS genotyping-by-sequencing, LCS_LD1 low-coverage sequencing set after removing SNPs in complete LD with other SNPs

ISSN: 1297-9686