Mcmc in the Analysis of Genetic Data on Pedigrees
نویسندگان
چکیده
This chapter provides a tutorial introduction to the use of MCMC in the analysis of data observed for multiple genetic loci on members of extended pedigrees in which there are many missing data. We introduce the specification of pedigrees and inheritance, and the structure of genetic models defining the dependence structure of data. We review exact computational algorithms which can provide a partial solution, and can be used to improve MCMC sampling of inheritance patterns. Realization of inheritance patterns can be used in several ways. Here, we focus on the estimation of multilocus linkage lod scores for the location of a locus affecting a disease trait relative to a known map of genetic marker loci.
منابع مشابه
A novel MCMC approach for constructing accurate meiotic maps
Mapping markers from linkage data continues to be a task performed in many genetic epidemiological studies. Data collected in a study may be used to refine published map estimates and a study may use markers that do not appear in any published map. Furthermore, inaccuracies in meiotic maps can seriously bias linkage findings. To make best use of the available marker information, multilocus link...
متن کاملEstimation of conditional multilocus gene identity among relatives
GeneticAnalysis Workshop identi ed ve key factors contributing to the resolutionof the genetic factors a ecting complex traits These in clude analysis with multipoint methods use of extended pedigrees and selective sampling of pedigrees By sampling the a ected individuals in an extended pedigree we obtain individualswho have an increasedprob ability of sharing genes identical by descent IBD at ...
متن کاملA novel Markov chain monte carlo approach for constructing accurate meiotic maps.
Mapping markers from linkage data continues to be a task performed in many genetic epidemiological studies. Data collected in a study may be used to refine published map estimates and a study may use markers that do not appear in any published map. Furthermore, inaccuracies in meiotic maps can seriously bias linkage findings. To make best use of the available marker information, multilocus link...
متن کاملApproximating identity-by-descent matrices using multiple haplotype configurations on pedigrees.
Identity-by-descent (IBD) matrix calculation is an important step in quantitative trait loci (QTL) analysis using variance component models. To calculate IBD matrices efficiently for large pedigrees with large numbers of loci, an approximation method based on the reconstruction of haplotype configurations for the pedigrees is proposed. The method uses a subset of haplotype configurations with h...
متن کاملUsing Markov chain Monte Carlo for multipoint linkage analysis: Improved estimates of lod scores
The calculation of exact likelihoods from pedigree data is limited to datasets containing either a small number of meioses, or a small number of linked genetic loci. In particular, the computation of likelihoods from data collected at multiple loci on large, extended pedigrees is infeasable. We perform multipoint linkage analysis on such datasets by estimating ratios of these otherwise intracta...
متن کامل