ArticleG3 (Bethesda, Md.)2012
Simulated data for genomic selection and genome-wide association studies using a combination of coalescent and gene drop methods.
Article in G3 (Bethesda, Md.), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
31 citing papers in PubMed.
- Quantifying genetic and genotypic gain gaps in Eucalyptus: the hidden cost of ignoring inbreeding and dominance.Heredity · 2025Article
- Optimizing the selection of quantitative traits in plant breeding using simulation.Frontiers in plant science · 2025Review
- Gene based markers improve precision of genome-wide association studies and accuracy of genomic predictions in rice breeding.Heredity · 2023Article
- Genomic prediction in family bulks using different traits and cross-validations in pine.G3 (Bethesda, Md.) · 2021Article
- AlphaSimR: an R package for breeding program simulations.G3 (Bethesda, Md.) · 2021Article
- Response to Early Generation Genomic Selection for Yield in Wheat.Frontiers in plant science · 2021Article
- Genomic Prediction of Additive and Non-additive Effects Using Genetic Markers and Pedigrees.G3 (Bethesda, Md.) · 2019Article
- Sequence imputation from low density single nucleotide polymorphism panel in a black poplar breeding population.BMC genomics · 2019Article
- Genomic Prediction Using Individual-Level Data and Summary Statistics from Multiple Populations.Genetics · 2018Article
- A method for allocating low-coverage sequencing resources by targeting haplotypes rather than individuals.Genetics, selection, evolution : GSE · 2017Article
- The potential of shifting recombination hotspots to increase genetic gain in livestock breeding.Genetics, selection, evolution : GSE · 2017Article
- Fine mapping by composite genome-wide association analysis.Genetics research · 2017Article
- A method for the allocation of sequencing resources in genotyped livestock populations.Genetics, selection, evolution : GSE · 2017Article
- Metafounders are related to FGenetics, selection, evolution : GSE · 2017Article
- A hybrid method for the imputation of genomic data in livestock populations.Genetics, selection, evolution : GSE · 2017Article
- Potential of gene drives with genome editing to increase genetic gain in livestock breeding programs.Genetics, selection, evolution : GSE · 2017Article
- The contribution of dominance to phenotype prediction in a pine breeding and simulated population.Heredity · 2016Article
- Effect of manipulating recombination rates on response to selection in livestock breeding programs.Genetics, selection, evolution : GSE · 2016Article
- Initiating maize pre-breeding programs using genomic selection to harness polygenic variation from landrace populations.BMC genomics · 2016Article
- Reliability of pedigree-based and genomic evaluations in selected populations.Genetics, selection, evolution : GSE · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
An approach is described for simulating data sequence, genotype, and phenotype data to study genomic selection and genome-wide association studies (GWAS). The simulation method, implemented in a software package called AlphaDrop, can be used to simulate genomic data and phenotypes with flexibility in terms of the historical population structure, recent pedigree structure, distribution of quantitative trait loci effects, and with sequence and single nucleotide polymorphism-phased alleles and genotypes. Ten replicates of a representative scenario used to study genomic selection in livestock were generated and have been made publically available. The simulated data sets were structured to encompass a spectrum of additive quantitative trait loci effect distributions, relationship structures, and single nucleotide polymorphism chip densities.
Indexed as
Identifiers
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.