ArticleGenetics2009
Approximate bayesian computation without summary statistics: the case of admixture.
Article in Genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Approximate Bayesian inference in a model for self-generated gradient collective cell movement.Computational statistics · 2025Article
- Inferring the historical demography of southern African cheetahs (Acinonyx jubatus) using Bayesian analyses of molecular genetic data.Genetics and molecular biology · 2025Article
- Inference of Locus-Specific Population Mixtures from Linked Genome-Wide Allele Frequencies.Molecular biology and evolution · 2024Article
- Our Tangled Family Tree: New Genomic Methods Offer Insight into the Legacy of Archaic Admixture.Genome biology and evolution · 2021Review
- A Likelihood-Free Inference Framework for Population Genetic Data using Exchangeable Neural Networks.Advances in neural information processing systems · 2018Article
- Reconstructing Past Admixture Processes from Local Genomic Ancestry Using Wavelet Transformation.Genetics · 2015Article
- Admixture Indicative Interval (AII): a new approach to assess trends in genetic admixture.Genetica · 2014Article
- Storytelling and story testing in domestication.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Hierarchical approximate Bayesian computation.Psychometrika · 2014Article
- Back to BaySICS: a user-friendly program for Bayesian Statistical Inference from Coalescent Simulations.PloS one · 2014Article
- Robust demographic inference from genomic and SNP data.PLoS genetics · 2013Article
- Atlantic salmon populations invaded by farmed escapees: quantifying genetic introgression with a Bayesian approach and SNPs.BMC genetics · 2013Article
- Efficient moment-based inference of admixture parameters and sources of gene flow.Molecular biology and evolution · 2013Article
- Article
- Female and male perspectives on the neolithic transition in Europe: clues from ancient and modern genetic data.PloS one · 2013Article
- On the structural plasticity of the human genome: chromosomal inversions revisited.Current genomics · 2012Article
- Population divergence with or without admixture: selecting models using an ABC approach.Heredity · 2012Article
- Lack of confidence in approximate Bayesian computation model choice.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- Evolution of lactase persistence: an example of human niche construction.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2011Article
- MTML-msBayes: approximate Bayesian comparative phylogeographic inference from multiple taxa and multiple loci with rate heterogeneity.BMC bioinformatics · 2011Article
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4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In recent years approximate Bayesian computation (ABC) methods have become popular in population genetics as an alternative to full-likelihood methods to make inferences under complex demographic models. Most ABC methods rely on the choice of a set of summary statistics to extract information from the data. In this article we tested the use of the full allelic distribution directly in an ABC framework. Although the ABC techniques are becoming more widely used, there is still uncertainty over how they perform in comparison with full-likelihood methods. We thus conducted a simulation study and provide a detailed examination of ABC in comparison with full likelihood in the case of a model of admixture. This model assumes that two parental populations mixed at a certain time in the past, creating a hybrid population, and that the three populations then evolve under pure drift. Several aspects of ABC methodology were investigated, such as the effect of the distance metric chosen to measure the similarity between simulated and observed data sets. Results show that in general ABC provides good approximations to the posterior distributions obtained with the full-likelihood method. This suggests that it is possible to apply ABC using allele frequencies to make inferences in cases where it is difficult to select a set of suitable summary statistics and when the complexity of the model or the size of the data set makes it computationally prohibitive to use full-likelihood methods.
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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 OpenQuestion graph.