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Figure 3 | BMC Bioinformatics

Figure 3

From: GVCBLUP: a computer package for genomic prediction and variance component estimation of additive and dominance effects

Figure 3

Graphical viewing of SNP additive and dominance effects and heritabilities. A: Manhattan plot of the original GBLUP values of SNP additive effects. B: Chromosome 14 graph of the original GBLUP values of SNP additive and dominance effects. C: Manhattan plot of the absolute GBLUP values of SNP additive effects. D: Chromosome 14 graph of the absolute GBLUP values of SNP additive and dominance effects. E: Manhattan plot of SNP additive heritabilities in percentage scale. F: Chromosome 14 graph of SNP additive and dominance heritabilities in percentage scale. G: Manhattan plot of SNP additive heritabilities in log10 scale. H: Chromosome 14 graph of SNP additive and dominance heritabilities in log10 scale. Dominance GBLUP values were all virtually zero, consistent with the fact that the phenotypic values for fat percentage were PTA values of additive effects. The highly significant chromosome 14 region is the DGAT1 region, and the graphs of C-F are similar to those using stratification corrections reported in Ma et al. [21]. The total additive heritability of SNP markers in the 1675278–4606904 Mb region of chromosome 14 that includes DGAT1 was 0.0248. Although additive heritabilities of other SNPs were much smaller than those in and near the DGAT1 region, those additive heritabilities were still considerably larger than dominance heritabilities, which were all virtually zero for all SNPs.

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