A Monte Carlo method for Bayesian analysis of linkage between single markers and quantitative trait loci. I. Methodology

1996 ◽  
Vol 93 (7) ◽  
pp. 1161-1166 ◽  
Author(s):  
G. Thaller ◽  
I. Hoeschele
Keyword(s):  
Monte Carlo ◽  
Quantitative Trait Loci ◽  
Monte Carlo Method ◽  
Bayesian Analysis ◽  
Quantitative Trait ◽  
Trait Loci

scholarly journals Mapping-Linked Quantitative Trait Loci Using Bayesian Analysis and Markov Chain Monte Carlo Algorithms

Genetics ◽  
1997 ◽  
Vol 146 (2) ◽  
pp. 735-743 ◽  
Author(s):  
Pekka Uimari ◽  
Ina Hoeschele
Keyword(s):  
Monte Carlo ◽  
Markov Chain ◽  
Markov Chain Monte Carlo ◽  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Allele Frequencies ◽  
Mcmc Methods ◽  
Substitution Effects ◽  
Indicator Variable ◽  
Trait Loci

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 polygenic and residual variances. Missing data were polygenic effects and multi-locus marker-QTL genotypes. Three different MCMC schemes for testing the presence of a single or two linked QTL on the chromosome were compared. The first approach includes a model indicator variable representing two unlinked QTL affecting the trait, one linked and one unlinked QTL, or both QTL linked with the markers. The second approach incorporates an indicator variable for each QTL into the model for phenotype, allowing or not allowing for a substitution effect of a QTL on phenotype, and the third approach is based on model determination by reversible jump MCMC. Methods were evaluated empirically by analyzing simulated granddaughter designs. All methods identified correctly a second, linked QTL and did not reject the one-QTL model when there was only a single QTL and no additional or an unlinked QTL.

scholarly journals Single- and Multiple-Trait Mapping Analysis of Linked Quantitative Trait Loci: Some Asymptotic Analytical Approximations

Genetics ◽  
1999 ◽  
Vol 151 (1) ◽  
pp. 387-396 ◽  
Author(s):  
Yefim I Ronin ◽  
Abraham B Korol ◽  
Eviatar Nevo
Keyword(s):  
Monte Carlo ◽  
Quantitative Trait Loci ◽  
Monte Carlo Simulations ◽  
Quantitative Trait ◽  
Multiple Trait ◽  
Good Correspondence ◽  
Analytical Approximations ◽  
Mapping Analysis ◽  
Trait Loci ◽  
Method Of Evaluation

Abstract Estimating the resolution power of mapping analysis of linked quantitative trait loci (QTL) remains a difficult problem, which has been previously addressed mainly by Monte Carlo simulations. The analytical method of evaluation of the expected LOD developed in this article spreads the “deterministic sampling approach for the case of two linked QTL for single- and two-trait analysis. Several complicated questions are addressed through this evaluation: the dependence of QTL detection power on the QTL effects, residual correlation between the traits, and the effect of epistatic interaction between the QTL for one or both traits on expected LOD (ELOD), etc. Although this method gives only an asymptotic estimation of ELOD, it allows one to get an approximate assessment of a broad spectrum of mapping situations. A good correspondence was found between the ELODs predicted by the model and LOD values averaged over Monte Carlo simulations.

Bayesian analysis of quantitative trait loci for boar taint in a Landrace outbred population1

2005 ◽  
Vol 83 (2) ◽  
pp. 301-307 ◽  
Author(s):  
L. Varona ◽  
O. Vidal ◽  
R. Quintanilla ◽  
M. Gil ◽  
A. Sánchez ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Bayesian Analysis ◽  
Quantitative Trait ◽  
Boar Taint ◽  
Trait Loci
Sign in / Sign up

Export Citation Format

Share Document