SynthesisCommunications biology2020
Effect direction meta-analysis of GWAS identifies extreme, prevalent and shared pleiotropy in a large mammal.
Synthesis in Communications biology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 2 of them syntheses that pooled it.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
26 citing papers in PubMed, 2 syntheses or guidelines pooled it, 40 citations in OpenAlex.
- Pooled it
- Meta-analysis for milk fat and protein percentage using imputed sequence variant genotypes in 94,321 cattle from eight cattle breeds.Genetics, selection, evolution : GSE · 2020Pooled it
- Establishing standards for genome wide association studies in eusocial insects through a case study in honey bees.Scientific reports · 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
- Genetic architecture of seed protein composition in grain amaranth (Frontiers in nutrition · 2026Article
- Integrating extensive functional annotations and multiomics of cattle enhances climate resilience prediction and mapping.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Integrating omics and functional data via representation learning to prioritize candidate genes for pleiotropic effect in dairy sheep.PNAS nexus · 2025Article
- Article
- Genome-wide analyses of variance in blood cell phenotypes provide new insights into complex trait biology and prediction.Nature communications · 2025Article
- Mendelian randomisation to uncover causal associations between conformation, metabolism, and production as potential exposure to reproduction in German Holstein dairy cattle.Genetics, selection, evolution : GSE · 2025Article
- StableMate: a statistical method to select stable predictors in omics data.NAR genomics and bioinformatics · 2024Article
- Accuracy of genomic prediction using multiple Atlantic salmon populations.Genetics, selection, evolution : GSE · 2024Article
- Genomic regions, candidate genes, and pleiotropic variants associated with physiological and anatomical indicators of heat stress response in lactating sows.BMC genomics · 2024Article
- Mendelian randomization analysis of 34,497 German Holstein cows to infer causal associations between milk production and health traits.Genetics, selection, evolution : GSE · 2024Article
- Pleiotropic Bias and Study Design Considerations in Genetic Association Studies.Medical journal of the Islamic Republic of Iran · 2024Article
- Genome-wide association study for growth traits with 1066 individuals in largemouth bass (Frontiers in molecular biosciences · 2024Article
- Gene expression and RNA splicing explain large proportions of the heritability for complex traits in cattle.Cell genomics · 2023Article
- Functionally prioritised whole-genome sequence variants improve the accuracy of genomic prediction for heat tolerance.Genetics, selection, evolution : GSE · 2022Article
- Editorial: Multi-Layered Genome-Wide Association/Prediction in Animals.Frontiers in genetics · 2022Article
- Mutant alleles differentially shape fitness and other complex traits in cattle.Communications biology · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In genome-wide association studies (GWAS), variants showing consistent effect directions across populations are considered as true discoveries. We model this information in an Effect Direction MEta-analysis (EDME) to quantify pleiotropy using GWAS of 34 Cholesky-decorrelated traits in 44,000+ cattle with sequence variants. The effect-direction agreement between independent bull and cow datasets was used to quantify the false discovery rate by effect direction (FDRed) and the number of affected traits for prioritised variants. Variants with multi-trait p < 1e-6 affected 1∼22 traits with an average of 10 traits. EDME assigns pleiotropic variants to each trait which informs the biology behind complex traits. New pleiotropic loci are identified, including signals from the cattle FTO locus mirroring its bystander effects on human obesity. When validated in the 1000-Bull Genome database, the prioritized pleiotropic variants consistently predicted expected phenotypic differences between dairy and beef cattle. EDME provides robust approaches to control GWAS FDR and quantify pleiotropy.
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What OpenQuestion holds
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 OpenQuestion graph.