ArticleGenetics, selection, evolution : GSE2019
Frequentist p-values for large-scale-single step genome-wide association, with an application to birth weight in American Angus cattle.
Article in Genetics, selection, evolution : GSE, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 90 papers, 1 of them a synthesis that pooled it.
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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
90 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Comparison of two multi-trait association testing methods and sequence-based fine mapping of six additive QTL in Swiss Large White pigs.BMC genomics · 2023Pooled it
- Genomic evaluation of productive-life indicators associated with longevity in Girolando cattle under tropical dairy conditions.Tropical animal health and production · 2026Article
- Genetic Parameters and Genome-Wide Association Studies for Fertility and Reproduction Traits in U.S. Katahdin Sheep Based on the Single-Step GBLUP Methodology.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2026Article
- Genetic parameters and genome-wide association analysis of service sire effects on litter size and its relationship with boar semen quality in three terminal sire lines.Genetics, selection, evolution : GSE · 2026Article
- Phenotypic and genomic study of digital dermatitis in UK Holstein heifers.BMC genomics · 2026Article
- The Paraphyletic Origins of Genetic Resistance to Cabbage Stem Flea Beetle inPlant-environment interactions (Hoboken, N.J.) · 2026Article
- Genome-Wide Association Studies of Milk Composition Traits in Holstein Cattle Raised in Tropical and Subtropical Conditions.Animals : an open access journal from MDPI · 2026Article
- Methods for joint genetic prediction of multiple ordinal categorical and continuous traits.Genetics · 2026Article
- Genomic insights into female productivity in limousine cattle: a single-step genome-wide association on longevity, fertility, and conformation traits.BMC genomics · 2026Article
- Genome-wide association study of mature cow size traits in American Angus cattle.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Article
- Article
- Sequence-based genome-wide association study reveals genetic and metabolic mechanisms underlying feed efficiency-related traits in beef cattle.Journal of animal science and biotechnology · 2026Article
- SNPs with High Linkage Disequilibrium Increase the Explained Genetic Variance and the Reliability of Genomic Predictions.Animals : an open access journal from MDPI · 2026Article
- Article
- Identification of candidate genes for reproductive traits in Chinese Holstein cattle using single-step genome-wide association study.Journal of animal science · 2026Article
- Disentangling mature cow weight and body condition score: a comparative single-step GWAS of phenotypic pre-adjustment vs. recursive modeling.Journal of animal science · 2026Article
- Modeling genotype-by-environment interactions across climatic conditions reveals environment-specific genomic regions and candidate genes underlying feed efficiency traits in tropical beef cattle.Scientific reports · 2026Article
- Genomic prediction of beef quality using GWAS-prioritized markers.Translational animal science · 2026Article
- Whole-genome sequencing GWAS reveals bovine genomic effects on enteric methane emissions in beef cattle.Scientific reports · 2025Article
- Single-step genome-wide association study of milk somatic cell scores across multi-cattle breeds in Ethiopia.Animal biotechnology · 2025Article
30 more citing papers are in PubMed but not listed here.
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Authors and funding
6 authors.
Funding
Abstract
backgroundSingle-step genomic best linear unbiased prediction (SSGBLUP) is a comprehensive method for genomic prediction. Point estimates of marker effects from SSGBLUP are often used for genome-wide association studies (GWAS) without a formal framework of hypothesis testing. Our objective was to implement p-values for single-marker GWAS studies within the single-step GWAS (SSGWAS) framework by deriving computational algorithms and procedures, and by applying these to a large beef cattle population.
methodsP-values were obtained based on the prediction error (co)variances for single nucleotide polymorphisms (SNPs), which were obtained from the prediction error (co)variances of genomic predictions based on the inverse of the coefficient matrix and formulas to estimate SNP effects.
resultsComputation of p-values took a negligible time for a dataset with almost 2 million animals in the pedigree and 1424 genotyped sires, and no inflation of statistics was observed. The SNPs that passed the Bonferroni threshold of 10
conclusionsThe use of a p-value for SSGWAS is a very general and efficient strategy to identify quantitative trait loci (QTL). It can be used for complex datasets such as those used in animal breeding, where only a proportion of the pedigreed animals are genotyped.
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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.