Using dominance relationship coefficients based on linkage disequilibrium and linkage with a general complex pedigree to increase mapping resolution

Title
Using dominance relationship coefficients based on linkage disequilibrium and linkage with a general complex pedigree to increase mapping resolution
Publication Date
2006
Author(s)
Lee, Sang Hong
Van Der Werf, Julius Herman
( author )
OrcID: https://orcid.org/0000-0003-2512-1696
Email: jvanderw@une.edu.au
UNE Id une-id:jvanderw
Type of document
Journal Article
Language
en
Entity Type
Publication
Publisher
Genetics Society of America
Place of publication
United States of America
DOI
10.1534/genetics.106.060806
UNE publication id
une:3582
Abstract
Dominance (intra-locus allelic interactions) plays often an important role in quantitative trait variation. However, few studies about dominance in QTL mapping have been reported in outbred animal or human populations. This is because common dominance effects can be predicted mainly for many full sibs which are not often occurring in outbred or natural populations with a general pedigree. Moreover, incomplete genotypes for such a pedigree make it infeasible to estimate dominance relationship coefficients between individuals. In this study, identity by descent (IBD) coefficients are estimated based on population wide linkage disequilibrium (LD), which makes it possible to tract dominance relationships between unrelated founders. Therefore, it is possible to use dominance effects in QTL mapping without full sibs. Incomplete genotypes with complex pedigree and many markers can be efficiently dealt with a Markov chain Monte Carlo method for estimating IBD and dominance relationship matrices (DRM). It is shown by simulation that the use of DRM increases the likelihood ratio at the true QTL position, and the mapping accuracy and power with complete dominance, overdominance and recessive inheritance modes when using 200 genotyped and phenotyped individuals.
Link
Citation
Genetics, 174(2), p. 1-8
ISSN
1943-2631
0016-6731
Start page
1
End page
8

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