title: Calculation of multipoint likelihoods using flanking marker data: a simulation study.
abstract: The calculation of multipoint likelihoods is computationally challenging, with the exact calculation of multipoint probabilities only possible on small pedigrees with many markers or large pedigrees with few markers. This paper explores the utility of calculating multipoint likelihoods using data on markers flanking a hypothesized position of the trait locus. The calculation of such likelihoods is often feasible, even on large pedigrees with missing data and complex structures. Performance characteristics of the flanking marker procedure are assessed through the calculation of multipoint heterogeneity LOD scores on data simulated for Genetic Analysis Workshop 14 (GAW14). Analysis is restricted to data on the Aipotu population on chromosomes 1, 3, and 4, where chromosomes 1 and 3 are known to contain disease loci. The flanking marker procedure performs well, even when missing data and genotyping errors are introduced.
authors.affiliation: Program in Public Health Genetics, College of Public Health, University of Iowa, Iowa City, Iowa, USA. andrew-george@uiowa.edu
authors.forename: Andrew W
authors.initials: AW
authors.lastname: George
authors.forename: LaVonne A
authors.initials: LA
authors.lastname: Mangin
authors.forename: Christopher W
authors.initials: CW
authors.lastname: Bartlett
authors.forename: Mark W
authors.initials: MW
authors.lastname: Logue
authors.forename: Alberto M
authors.initials: AM
authors.lastname: Segre
authors.forename: Veronica J
authors.initials: VJ
authors.lastname: Vieland
mesh_terms: D002874:Chromosome Mapping; D002878:Chromosomes, Human, Pair 1 / Q000235:genetics; D003198:Computer Simulation; D030541:Databases, Genetic; D018740:Genetic Heterogeneity; D008040:Genetic Linkage; D005819:Genetic Markers; D005838:Genotype; D006801:Humans; D016013:Likelihood Functions; D008126:Lod Score; D040641:Quantitative Trait Loci / Q000235:genetics; D012984:Software
chemical_list: D005819:Genetic Markers