Linkage between quantitative trait and marker loci: methods using all relative pairs. 1993

J M Olson, and E M Wijsman
Department of Biostatistics, University of Washington, Seattle 98195.

Relative-pair methods for detection of linkage between a quantitative trait and a marker locus have been proposed by a number of authors [e.g., Haseman and Elston, Behav Genet 3-19, 1972; Amos and Elston, Genet Epidemiol 349-360, 1989]. However, development of tests of significance that combine information from different types of relative pairs has been hampered by the presence of correlations between relative pairs from the same pedigree. In this paper, the methodology of generalized estimating equations is used to provide an estimate of the robust covariance matrix of the estimates of the set of relative-pair-type-specific regression parameters. Using this matrix, an asymptotically most powerful test of linkage which optimally combines the information contained in the different types of relative pairs is constructed. This test requires optimal weights that depend on unknown values of heritability and recombination fraction to be chosen a priori. However, simulations show that, in the regions of recombination fraction and heritability of practical interest, the power of the test does not depend strongly on the assumptions made when choosing the optimal weights; as a result, weights that depend only on the number of each type of relative pair and the variability of the marker identity-by-descent probabilities work well in practice. In addition, an approximation to the regression model leads to a simple approach to testing linkage in which only a single regression parameter is estimated from data containing different types of relative pairs. The resulting test is slightly less powerful than the test described above, but its computational simplicity and lack of dependence on a priori weighting schemes suggest potential usefulness in large linkage studies.

UI MeSH Term Description Entries
D008040 Genetic Linkage The co-inheritance of two or more non-allelic GENES due to their being located more or less closely on the same CHROMOSOME. Genetic Linkage Analysis,Linkage, Genetic,Analyses, Genetic Linkage,Analysis, Genetic Linkage,Genetic Linkage Analyses,Linkage Analyses, Genetic,Linkage Analysis, Genetic
D008433 Mathematics The deductive study of shape, quantity, and dependence. (From McGraw-Hill Dictionary of Scientific and Technical Terms, 6th ed) Mathematic
D008957 Models, Genetic Theoretical representations that simulate the behavior or activity of genetic processes or phenomena. They include the use of mathematical equations, computers, and other electronic equipment. Genetic Models,Genetic Model,Model, Genetic
D010375 Pedigree The record of descent or ancestry, particularly of a particular condition or trait, indicating individual family members, their relationships, and their status with respect to the trait or condition. Family Tree,Genealogical Tree,Genealogic Tree,Genetic Identity,Identity, Genetic,Family Trees,Genealogic Trees,Genealogical Trees,Genetic Identities,Identities, Genetic,Tree, Family,Tree, Genealogic,Tree, Genealogical,Trees, Family,Trees, Genealogic,Trees, Genealogical
D012044 Regression Analysis Procedures for finding the mathematical function which best describes the relationship between a dependent variable and one or more independent variables. In linear regression (see LINEAR MODELS) the relationship is constrained to be a straight line and LEAST-SQUARES ANALYSIS is used to determine the best fit. In logistic regression (see LOGISTIC MODELS) the dependent variable is qualitative rather than continuously variable and LIKELIHOOD FUNCTIONS are used to find the best relationship. In multiple regression, the dependent variable is considered to depend on more than a single independent variable. Regression Diagnostics,Statistical Regression,Analysis, Regression,Analyses, Regression,Diagnostics, Regression,Regression Analyses,Regression, Statistical,Regressions, Statistical,Statistical Regressions
D004812 Epidemiologic Methods Research techniques that focus on study designs and data gathering methods in human and animal populations. Epidemiologic Method,Epidemiological Methods,Methods, Epidemiologic,Epidemiological Method,Method, Epidemiologic,Method, Epidemiological,Methods, Epidemiological
D005819 Genetic Markers A phenotypically recognizable genetic trait which can be used to identify a genetic locus, a linkage group, or a recombination event. Chromosome Markers,DNA Markers,Markers, DNA,Markers, Genetic,Genetic Marker,Marker, Genetic,Chromosome Marker,DNA Marker,Marker, Chromosome,Marker, DNA,Markers, Chromosome
D006801 Humans Members of the species Homo sapiens. Homo sapiens,Man (Taxonomy),Human,Man, Modern,Modern Man

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