Bayesian model determination for quantitative trait loci
نویسندگان
چکیده
A reversible jump Markov chain Monte Carlo (MCMC) algorithm is illustrated to infer the number of quantitative trait loci (QTL) a ecting a phenotypic trait, their chromosomal locations, and their e ects. A multi-loci model is t to quantitative trait and molecular marker data, with the trait response modeled as a linear function of the additive and dominance e ects of the unknown QTL genotypes. The number of QTL is unknown and must be estimated as well. Inference summaries for the number of loci, their locations and e ects are obtained from the corresponding marginal posterior densities obtained by integrating the likelihood using reversible jump MCMC, rather than by optimizing the joint likelihood surface. Using simulated data and owering time data from Brassica napus we observe that the choice of prior distribution plays an important role in inference. This prior distribution greatly in uences how well the chain mixes as well as the posterior distribution of the number of loci. However, the posterior mode of the number of loci is not a ected by the choice of its prior. Further, neither the choice of prior nor the starting value for the number of loci a ect the estimated chromosomal locations and their e ects.
منابع مشابه
Mapping-linked quantitative trait loci using Bayesian analysis and Markov chain Monte Carlo algorithms.
A Bayesian method for mapping linked quantitative trait loci (QTL) using multiple linked genetic markers is presented. Parameter estimation and hypothesis testing was implemented via Markov chain Monte Carlo (MCMC) algorithms. Parameters included were allele frequencies and substitution effects for two biallelic QTL, map positions of the QTL, and markers, allele frequencies of the markers, and ...
متن کاملمقایسه روش های مختلف آماری در انتخاب ژنومی گاوهای هلشتاین
Genomic selection combines statistical methods with genomic data to predict genetic values for complex traits. The accuracy of prediction of genetic values in selected population has a great effect on the success of this selection method. Accuracy of genomic prediction is highly dependent on the statistical model used to estimate marker effects in reference population. Various factors such a...
متن کاملQuantitative Trait Loci for some of Behavior and Performance Traits on Chromosome 4 of Japanese Quail
The current study was conducted to identify the quantitative trait locus (QTL) for the body weight at age 1, 7, 14, 21 and 28 days and daily gain at age 0-1, 1-2, 2-3 and 3-4 weeks, slighter carcass weight and tonic immobility in Japanese quail. Two divergently lines of wild and white Japanese quail which maintained in the Animal Science Research Center of the Shahid Bahonar University of Kerma...
متن کاملLinkage analysis of microsatellite markers on chromosome 5 in an F2 population of Japanese quail to identify quantitative trait loci affecting carcass traits
An F2 Japanese quail population was developed by crossing two strains (wild and white) to map quantitative trait loci (QTL) for performance and carcass traits. A total of 472 F2 birds were reared and slaughtered at 42 days of age. Performance and carcass traits were measured on all of the F2 individuals. Parental (P0), F1 and F2 individuals were genotyped with 3 microsatellites from quail chrom...
متن کامل