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Figure 4 illustrates LD for the reduced data set of the three genes.
Control animals were housed in 14∶10 LD for the duration of the experiment.
East Asian (Chinese and Japanese) populations had very similar patterns of LD (for the whole haplotype block of 4 SNPs).
Higher SNR after HYPR-LR-post-processing also reduces the difference between ULD and LD for the minimum attenuation values.
We compared the extent of LD for the 8 villages and for a sample originating from other geographical areas of Sardinia.
By comparison, the extent of LD for the GR between the two subpopulations is 1.4 Mb for the US subpopulation and 1.8 Mb for the European.
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Figure 5 shows how the additive and dominance parameter estimates at the hit SNPs vary with LD, for simulations where the causal SNP is dominant.
According to the criteria of Gabriel et al. [ 11], all five SNPs in CRHR1 were assigned to an LD block in the EA sample, SNPs rs171440 and rs1396862 to an LD block for the AA sample, and SNPs rs171440, rs1396862, and rs878886 to an LD block for the pooled AA and EA samples.
In this article we focus on the g-degree relatives model with two LD terms for the single common founder and a single LD term for each of the two direct parents of the typed individuals.
The mean LD for all pairwise comparisons for the four sex-linked fragment was r 2 VS = 0.72 for a total physical length of 109.76 kb.
In addition, we compared the expected average LD to the achieved average LD for 44 000 loci with the highest minor allele frequencies, which were chosen as SNP.
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