title: A covariance structure model for the admixture of binary genetic variation.
abstract: I derive a covariance structure model for pairwise linkage disequilibrium (LD) between binary markers in a recently admixed population and use a generalized least-squares method to fit the model to two different data sets. Both linked and unlinked marker pairs are incorporated in the model. Under the model, a pairwise LD matrix is decomposed into two component matrices, one containing LD attributable to admixture, and another containing, in an aggregate form, LD specific to the populations forming the mixture. I use population genetics theory to show that the latter matrix has block-diagonal structure. For the data sets considered here, I show that the number of source populations can be determined by statistical inference on the canonical correlations of the sample LD matrix.
authors.affiliation: Department of Anthropology, University of California-Davis, 1 Shields Avenue, Davis, CA 95616, USA. mngrote@ucdavis.edu
authors.forename: Mark N
authors.initials: MN
authors.lastname: Grote
mesh_terms: D041321:Chromosomes, Human, X / Q000235:genetics; D030541:Databases, Genetic; D005260:Female; D005819:Genetic Markers; D014644:Genetic Variation; D005828:Genetics, Population / Q000706:statistics & numerical data; D006801:Humans; D015810:Linkage Disequilibrium; D008297:Male; D008957:Models, Genetic; D015233:Models, Statistical; D020161:Physical Chromosome Mapping; D020641:Polymorphism, Single Nucleotide
chemical_list: D005819:Genetic Markers