Linear Models for the Prediction of Animal Breeding Values


Book Description

The prediction of producing desirable traits in offspring such as increased growth rate or superior meat, milk and wool production is a vital economic tool to the animal scientist. Summarizing the latest developments in genomics relating to animal breeding values and design of breeding programs, this new edition includes models of survival analysis, social interaction and sire and dam models, as well as advancements in the use of SNPs in the computation of genomic breeding values.




Linear Models for the Prediction of the Genetic Merit of Animals, 4th Edition


Book Description

Fundamental to any livestock improvement programme by animal scientists, is the prediction of genetic merit in the offspring generation for desirable production traits such as increased growth rate, or superior meat, milk and wool production. Covering the foundational principles on the application of linear models for the prediction of genetic merit in livestock, this new edition is fully updated to incorporate recent advances in genomic prediction approaches, genomic models for multi-breed and crossbred performance, dominance and epistasis. It provides models for the analysis of main production traits as well as functional traits and includes numerous worked examples. For the first time, R codes for key examples in the textbook are provided online. Suitable for graduate and postgraduate students, researchers and lecturers of animal breeding, genetics and genomics, this established textbook provides a thorough grounding in both the basics and in new developments of linear models and animal genetics.




Book of Abstracts of the 65th Annual Meeting of the European Association for Animal Production


Book Description

This Book of Abstracts is the main publication of the 65th Annual Meeting of the European Federation for Animal Science 2014 in Copenhagen, Denmark. It contains abstracts of the invited papers and contributed presentations. The meeting addressed subjects relating to science and innovation. Important problems were also discussed during the sessions of EAAP's nine Commissions: Animal Genetics, Animal Nutrition, Animal Management and Health, Animal Physiology, Cattle Production, Sheep and Goat Production, Pig Production, Horse Production and Livestock Farming Systems.




Book of Abstracts of the 67th Annual Meeting of the European Federation of Animal Science


Book Description

This Book of Abstracts is the main publication of the 67th Annual Meeting of the European Association for Animal Production (EAAP). It contains abstracts of the invited papers and contributed presentations of the sessions of EAAP's nine Commissions: Animal Genetics, Animal Nutrition, Animal Management and Health, Animal Physiology, Cattle Production, Sheep and Goat Production, Pig Production, Horse Production and Livestock Farming Systems.




Mixed Effects Models for Complex Data


Book Description

Although standard mixed effects models are useful in a range of studies, other approaches must often be used in correlation with them when studying complex or incomplete data. Mixed Effects Models for Complex Data discusses commonly used mixed effects models and presents appropriate approaches to address dropouts, missing data, measurement errors, censoring, and outliers. For each class of mixed effects model, the author reviews the corresponding class of regression model for cross-sectional data. An overview of general models and methods, along with motivating examples After presenting real data examples and outlining general approaches to the analysis of longitudinal/clustered data and incomplete data, the book introduces linear mixed effects (LME) models, generalized linear mixed models (GLMMs), nonlinear mixed effects (NLME) models, and semiparametric and nonparametric mixed effects models. It also includes general approaches for the analysis of complex data with missing values, measurement errors, censoring, and outliers. Self-contained coverage of specific topics Subsequent chapters delve more deeply into missing data problems, covariate measurement errors, and censored responses in mixed effects models. Focusing on incomplete data, the book also covers survival and frailty models, joint models of survival and longitudinal data, robust methods for mixed effects models, marginal generalized estimating equation (GEE) models for longitudinal or clustered data, and Bayesian methods for mixed effects models. Background material In the appendix, the author provides background information, such as likelihood theory, the Gibbs sampler, rejection and importance sampling methods, numerical integration methods, optimization methods, bootstrap, and matrix algebra. Failure to properly address missing data, measurement errors, and other issues in statistical analyses can lead to severely biased or misleading results. This book explores the biases that arise when naïve methods are used and shows which approaches should be used to achieve accurate results in longitudinal data analysis.







Quantitative Genetics in the Wild


Book Description

Although the field of quantitative genetics - the study of the genetic basis of variation in quantitative characteristics such as body size, or reproductive success - is almost 100 years old, its application to the study of evolutionary processes in wild populations has expanded greatly over the last few decades. During this time, the use of 'wild quantitative genetics' has provided insights into a range of important questions in evolutionary ecology, ranging from studies conducting research in well-established fields such as life-history theory, behavioural ecology and sexual selection, to others addressing relatively new issues such as populations' responses to climate change or the process of senescence in natural environments. Across these fields, there is increasing appreciation of the need to quantify the genetic - rather than just the phenotypic - basis and diversity of key traits, the genetic basis of the associations between traits, and the interaction between these genetic effects and the environment. This research activity has been fuelled by methodological advances in both molecular genetics and statistics, as well as by exciting results emerging from laboratory studies of evolutionary quantitative genetics, and the increasing availability of suitable long-term datasets collected in natural populations, especially in animals. Quantitative Genetics in the Wild is the first book to synthesize the current level of knowledge in this exciting and rapidly-expanding area. This comprehensive volume also offers exciting perspectives for future studies in emerging areas, including the application of quantitative genetics to plants or arthropods, unraveling the molecular basis of variation in quantitative traits, or estimating non-additive genetic variance. Since this book deals with many fundamental questions in evolutionary ecology, it should be of interest to graduate, post-graduate students, and academics from a wide array of fields such as animal behaviour, ecology, evolution, and genetics.




Multivariate Statistical Machine Learning Methods for Genomic Prediction


Book Description

This book is open access under a CC BY 4.0 license This open access book brings together the latest genome base prediction models currently being used by statisticians, breeders and data scientists. It provides an accessible way to understand the theory behind each statistical learning tool, the required pre-processing, the basics of model building, how to train statistical learning methods, the basic R scripts needed to implement each statistical learning tool, and the output of each tool. To do so, for each tool the book provides background theory, some elements of the R statistical software for its implementation, the conceptual underpinnings, and at least two illustrative examples with data from real-world genomic selection experiments. Lastly, worked-out examples help readers check their own comprehension.The book will greatly appeal to readers in plant (and animal) breeding, geneticists and statisticians, as it provides in a very accessible way the necessary theory, the appropriate R code, and illustrative examples for a complete understanding of each statistical learning tool. In addition, it weighs the advantages and disadvantages of each tool.




Poultry Genetics, Breeding, and Biotechnology


Book Description

This comprehensive research book represents the first complete integration of current knowledge in this area. It addresses issues associated with poultry breeding particularly by examining quantitative and molecular genetics and the uses of transgenic technology. A special section covers the important area of disease resistance and transmission.