The Admixture Linkage Disequilibrium and Genetic Linkage Inference on the Gradual Admixture Population |
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Authors: | Wei GUO Wing-Kam FUNG |
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Institution: | Department of Statistics and Actuarial Science, the University of Hong Kong, Hong Kong, China |
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Abstract: | Through the theoretical analysis of the admixture linkage disequilibrium (ALD) in the gradual admixture (GA) model, in which admixture occurs in every generation, the ALD is found to be proportional to the difference in marker allele frequencies, p1-p2, between two subpopulations. Based on this property, we can employ a strict monotonic function (Δker=Δ/(p1-p2), where Δ denotes the linkage disequilibrium (LD)) of the recombination fraction between the marker locus and the disease locus to infer the true genetic linkage. We construct a quasi likelihood ratio test (LRT) for the case-only data utilizing the information of unlinked markers in the human genome. The simulation results show that our tests can be used to fine map a disease locus. The effects of parameter values in the ALD mapping are also discussed. |
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Keywords: | admixture linkage disequilibrium (ALD) linkage disequilibrium (LD) gradual admixture (GA) model hybrid isolation (HI) model likelihood ratio test (LRT) |
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