Prospects for whole-genome linkage disequilibrium
mapping of common disease genes.
To test for intra- and interlocus linkage disequilibrium
(LD) and recombination, the three genes were concatenated into a single sequence and arranged in the same order in which the genes are arranged along the chromosome (Tranquilli et al.
We note that a low level of misscoring can have substantial effects on estimates of Hardy-Weinberg equilibrium (see below), whereas estimates of allele frequency and linkage disequilibrium
are not much affected.
The presence of a small number of haplotypes shared by multiple individuals is indicative of linkage disequilibrium
60, respectively, indicated that the variants were in linkage disequilibrium
among markers in each generation was measured by the correlations among markers within each generation.
Difference in selection regimes between habitats, coupled with genetic variation for habitat preference, leads to linkage disequilibrium
between performance and habitat preference loci.
In our study, the LD and haplotype analyses indicated the presence of strong linkages among APOB rs2163204, rs1042034, and rs676210, and strong linkage disequilibrium
was observed between rs1042034 and rs676210.
15]), if the genome location was unknown or if the SNP showed complete linkage disequilibrium
Genetic drift generates nonrandom associations among unlinked loci; LDNe analyzes this linkage disequilibrium
between a set of unlinked loci to determine contemporary Ne for a single time point, producing three values based on preset allele frequency exclusion criteria.
The linkage disequilibrium
and haplotype construction were performed from the observed genotypes using SHEsis method (http://www.
Use of molecular markers in linkage disequilibrium
, genetic mapping and association studies, as well as in diagnostic assays to detect genetic diseases and/or polymorphisms associated with production traits, have been long limited by technological constraints.