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Haplotype analysis also showed significant association with categorical DD and most associated haplotypes contain the rs3743205 allele.
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This marker defines the end of the most associated two marker haplotype in the genome and not just the region nearby.
We did not perform a haplotype analysis because the most associated SNP rs360719 (-1297) is not located in a haplotype block, but is a singleton.
The consistent association of high myopia with PAX6 haplotypes rather than single SNPs implies that the SNPs being studied are most likely not the causal variants driving the association and that the associated haplotypes are expected to carry or to be in strong LD with the causal variants.
Indeed, as the haplotype-tagging SNPs are markers which capture most of the haplotypes in a region of linkage disequilibrium, and most associated SNPs have an unknown or no biologic function (summarized in Table 6), it is likely that the observed associations refer to genetic haplotype variation tagged by these SNPs.
It was interesting to find that most of the Indian Q (Q4, Q5 and Q*) associated Y-STR haplotypes were separated from the bulk of Central Asian Q* associated haplotypes.
These changes were most associated with city official Sergei Kapkov.
Our study also successfully replicated the associated haplotypes found in a recent study.
However, although the fraction of SNPs with the most associated SDP is small, these are evenly distributed across the QTL with logP values that track those of the 8-way haplotype logP.
All the other associated haplotypes, including HAP_GRM7, did not survive permutation testing (data not shown).
Accordingly, in this study, we were able to find a core haplotype of 4.1 kb by comparing the most strongly-associated haplotype per population in four Caucasian cohorts, which indicated a common associated haplotype between these populations (Fig. 1C, Table 2).
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