Haplotype variation and linkage disequilibrium
in 313 human genes.
The assessment of genetic diversity at these closely located and closely linked loci provided insight into neutrality-selection models and patterns of linkage disequilibrium
and recombination in an important region of the D genome of wheat.
Heterozygote deficit and linkage disequilibrium
were estimated by maximum likelihood, using the same methods as Szymura and Barton (1991) and Sites et al.
This is possible because the GCH1 SNPs are in linkage disequilibrium
, as we and others (2) have observed.
Allele and Genotypic Frequencies, Linkage Disequilibrium
Under these assumptions, the magnitude of the linkage disequilibrium
in both models is proportional to [Mu]q, with the proportionality constant ranging from 0.
Standardized linkage disequilibrium
coefficients (D') among five apolipoprotein B gene single nucleotide polymorphisms (SNP) SNP rs1042034 rs2163204 rs512535 rs1042034 -- 0.
The accuracy of GEBV prediction relies on many factors, for examples size of reference population, marker density, heritability of the trait, QTL effects, the extent of linkage disequilibrium
(LD) between markers and the QTL, and the LD phase persistence between the reference population and the validation population [1,6,12].
After correction for multiple comparisons, no linkage disequilibrium
was detected at any loci and all loci met the expectations of HWE (all P > 0.
The standardized measure of linkage disequilibrium
(LD), denoted as 'D'' was estimated at all possible pairs of SNP loci.
estimates and identification of haplotype blocks
We performed the linkage disequilibrium
analysis using Haploview4.
(LD) test was performed for the six SNPs, and the pairwise r [sup]2 and D' values were calculated.
Discussion and Conclusions: These results show that a significant degree of novel genetic variation remains to be discovered among minority populations and further analysis of these additional variants will improve our ability to identify which variants are directly influencing the pathophysiology of pre-eclampsia as opposed to simply being associated through linkage disequilibrium
The replication analyses was performed on two intronic CDH13 SNPs exhibiting the lowest or very low p-values in the discovery phase without being in high linkage disequilibrium
with one other (top hit, rs232593, and rs17284098).