Likelihood, Bayesian, and MCMC methods in quantitative genetics
The aim of this book is to give the key ideas underlying likelihood and Bayesian inference in statistical genetics, with particular emphasis on Markov chain Monte Carlo (MCMC) methods, so that they are accessible to numerate biologists. Derivations are given in great detail, and the examples used are generally from quantitative genetics, including animal breeding, and are fully worked out. The book is organised into four parts as follows. Part I gives a review of probability and distribution theory, while Part II introduces methods of statistical inference. Part III gives the background to MCMC, and detailed discussion of MCMC procedures, including the Metropolis-Hastings algorithm, the Gibbs sampler and reversible jump MCMC, and finally overviews methods for analysing MCMC output including convergence issues and sensitivity analysis. The final Part presents some of the models that currently are being used in quantitative genetics. The treatment is mainly Bayesian and the models are implemented via MCMC. They include mixed models for single- and multiple-trait analyses, analyses involving ordered categorical traits based on Wright's threshold model, models for analysis of longitudinal data, segregation analysis and models for the detection of quantitative trait loci.
- Mathematical and statistical methods for genetic analysis
- scientific article; zbMATH DE number 1081478
- MCMC in the analysis of genetic data on pedigrees
- On the Application of Markov Chain Monte Carlo Methods to Genetic Analyses on Complex Pedigrees
- Monte Carlo Markov chain methods and model selection in genetic epidemiology
- Bowker's test for symmetry and modifications within the algebraic framework
- Accounting for data architecture on structural equation modeling of feedlot cattle performance
- Simulation-based fully Bayesian experimental design for mixed effects models
- Approximate maximum likelihood estimation for population genetic inference
- Efficient computation with a linear mixed model on large-scale data sets with applications to genetic studies
- Monte Carlo Bayesian methods for quantitative traits
- Inferring trait-specific similarity among individuals from molecular markers and phenotypes with Bayesian regression
- Hierarchical modeling of structural coefficients for heterogeneous networks with an application to animal production systems
- The determination of uncertainty levels in robust clustering of subjects with longitudinal observations using the Dirichlet process mixture
- A note on the hierarchical model for responses and response times in tests of van der Linden (2007)
- Statistical inference from genetic data on pedigrees
- scientific article; zbMATH DE number 5954264 (Why is no real title available?)
- A Bayesian Approach for Incorporating Variable Rates of Heterogeneity in Linkage Analysis
- Bayesian Point Estimation of Quantitative Trait Loci
- Empirical likelihood-based inference for genetic mixture models
- scientific article; zbMATH DE number 5372365 (Why is no real title available?)
- Bayesian Methods for Examining Hardy-Weinberg Equilibrium
- Mixed modeling with whole genome data
- Analysis of survival data by a Weibull-Bessel distribution
- Bayesian Analysis of Quantitative Trait Locus Data Using Reversible Jump Markov Chain Monte Carlo
- Bayesian MCMC Mapping of Quantitative Trait Loci in a Half-sib Design: a Graphical Model Perspective
- Inferring upon heterogeneous associations in dairy cattle performance using a bivariate hierarchical model
- Modeling additive genetic effects in animal models by closed skew normal distribution
- Bayesian approach to the inverse problem in a light scattering application
- Multivariate hierarchical Bayesian models and choice of priors in the analysis of survey data
- Hierarchical Bayesian Lasso for a negative binomial regression
- Gibbs sampling approach to regime switching analysis of financial time series
- AABC: approximate approximate Bayesian computation for inference in population-genetic models
- Model selection via adaptive shrinkage with \(t\) priors
- Bayesian zero-augmented Birnbaum-Saunders multilevel random effects model: an application to dietary consumption
- Asymmetry models for square contingency tables: exact tests via algebraic statistics
- A review of Markov chain Monte Carlo and information theory tools for inverse problems in subsurface flow
- Supplementation of a clinical trial by historical control data: is the prospect of dynamic borrowing an illusion?
- Constructing optimal transition matrix for Markov chain Monte Carlo
- Estimating effects and making predictions from genome-wide marker data
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