Genomic selection using low density marker panels with application to a sire line in pigs

Table 3 Effect of genotyping the maternal grandsires at high-density

Number of markers in low-density panel	Genotype error rate/imputation accuracy		Standard deviation of error rate
Number of markers in low-density panel	S	S + GS	S	S + GS
384	0.149/0.77	0.129/0.79	0.036	0.026
768	0.093/0.85	0.076/0.88	0.027	0.022
1152	0.062/0.90	0.053/0.91	0.021	0.016
3000	0.027/0.96	0.022/0.96	0.013	0.007

Genotype error rate, imputation accuracy, and the standard deviation of imputation error rate for individuals with only the sire (S), or sire and maternal grandsire (S + GS) genotyped at high-density, for different low-density marker panels

ISSN: 1297-9686