ArticleGenetics2017
Genome-Wide Association Analyses Based on Broadly Different Specifications for Prior Distributions, Genomic Windows, and Estimation Methods.
Article in Genetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
20 citing papers in PubMed.
- Uncovering the genetic basis of milk production traits in Mexican Holstein cattle based on individual markers and genomic windows.PloS one · 2025Article
- Article
- Genetic Parameter and Hyper-Parameter Estimation Underlie Nitrogen Use Efficiency in Bread Wheat.International journal of molecular sciences · 2023Article
- Local and Bayesian Survival FDR Estimations to Identify Reliable Associations in Whole Genome of Bread Wheat.International journal of molecular sciences · 2023Article
- New insights into the genetic resistance to paratuberculosis in Holstein cattle via single-step genomic evaluation.Genetics, selection, evolution : GSE · 2022Article
- A Bayesian random regression method using mixture priors for genome-enabled analysis of time-series high-throughput phenotyping data.The plant genome · 2022Article
- Application of Bayesian genomic prediction methods to genome-wide association analyses.Genetics, selection, evolution : GSE · 2022Review
- Estimating genetic variance contributed by a quantitative trait locus: A random model approach.PLoS computational biology · 2022Article
- Genome-Wide Association Study Statistical Models: A Review.Methods in molecular biology (Clifton, N.J.) · 2022Review
- Estimating inbreeding depression for growth and reproductive traits using pedigree and genomic methods in Argentinean Brangus cattle.Journal of animal science · 2021Article
- Interpretable artificial neural networks incorporating Bayesian alphabet models for genome-wide prediction and association studies.G3 (Bethesda, Md.) · 2021Article
- Tests of association based on genomic windows can lead to spurious associations when using genotype panels with heterogeneous SNP densities.Genetics, selection, evolution : GSE · 2021Article
- Single-Trait and Multiple-Trait Genomic Prediction From Multi-Class Bayesian Alphabet Models Using Biological Information.Frontiers in genetics · 2021Article
- A Multiple-Trait Bayesian Variable Selection Regression Method for Integrating Phenotypic Causal Networks in Genome-Wide Association Studies.G3 (Bethesda, Md.) · 2020Article
- Views on GWAS statistical analysis.Bioinformation · 2020Article
- Marker discovery and associations with β-carotene content in Indian dairy cattle and buffalo breeds.Journal of dairy science · 2019Article
- Model-based clustering for identifying disease-associated SNPs in case-control genome-wide association studies.Scientific reports · 2019Article
- Frequentist p-values for large-scale-single step genome-wide association, with an application to birth weight in American Angus cattle.Genetics, selection, evolution : GSE · 2019Article
- A certain invariance property of BLUE in a whole-genome regression context.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2019Article
- GWAS by GBLUP: Single and Multimarker EMMAX and Bayes Factors, with an Example in Detection of a Major Gene for Horse Gait.G3 (Bethesda, Md.) · 2018Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A currently popular strategy (EMMAX) for genome-wide association (GWA) analysis infers association for the specific marker of interest by treating its effect as fixed while treating all other marker effects as classical Gaussian random effects. It may be more statistically coherent to specify all markers as sharing the same prior distribution, whether that distribution is Gaussian, heavy-tailed (BayesA), or has variable selection specifications based on a mixture of, say, two Gaussian distributions [stochastic search and variable selection (SSVS)]. Furthermore, all such GWA inference should be formally based on posterior probabilities or test statistics as we present here, rather than merely being based on point estimates. We compared these three broad categories of priors within a simulation study to investigate the effects of different degrees of skewness for quantitative trait loci (QTL) effects and numbers of QTL using 43,266 SNP marker genotypes from 922 Duroc-Pietrain F
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.