ArticleGenetics2007
On the utility of linkage disequilibrium as a statistic for identifying targets of positive selection in nonequilibrium populations.
Article in Genetics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed.
- Recent Insights Into the Evolutionary Genomics of the Critically Endangered Aye-Aye (Daubentonia madagascariensis).American journal of primatology · 2025Review
- Accounting for Chimerism in Demographic Inference: Reconstructing the History of Common Marmosets (Callithrix jacchus) from High-Quality, Whole-Genome, Population-Level Data.Molecular biology and evolution · 2025Article
- Inferring demographic and selective histories from population genomic data using a 2-step approach in species with coding-sparse genomes: an application to human data.G3 (Bethesda, Md.) · 2025Article
- Inferring demographic and selective histories from population genomic data using a two-step approach in species with coding-sparse genomes: an application to human data.bioRxiv : the preprint server for biology · 2024Article
- Temporal challenges in detecting balancing selection from population genomic data.G3 (Bethesda, Md.) · 2024Article
- Functional genomic diversity is correlated with neutral genomic diversity in populations of an endangered rattlesnake.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Evaluating power to detect recurrent selective sweeps under increasingly realistic evolutionary null models.Evolution; international journal of organic evolution · 2023Article
- Evaluating power to detect recurrent selective sweeps under increasingly realistic evolutionary null models.bioRxiv : the preprint server for biology · 2023Article
- Recommendations for improving statistical inference in population genomics.PLoS biology · 2022Article
- Effects of Selection at Linked Sites on Patterns of Genetic Variability.Annual review of ecology, evolution, and systematics · 2021Article
- Maintenance of Adaptive Dynamics and No Detectable Load in a Range-Edge Outcrossing Plant Population.Molecular biology and evolution · 2021Article
- Article
- Background Selection Does Not Mimic the Patterns of Genetic Diversity Produced by Selective Sweeps.Genetics · 2020Article
- A Likelihood Approach for Uncovering Selective Sweep Signatures from Haplotype Data.Molecular biology and evolution · 2020Article
- Article
- Selective Sweeps.Genetics · 2019Review
- Genomic Signatures of Reinforcement.Genes · 2018Review
- Differential Effect of Selection against LINE Retrotransposons among Vertebrates Inferred from Whole-Genome Data and Demographic Modeling.Genome biology and evolution · 2018Article
- Assessing genetic architecture and signatures of selection of dual purpose Gir cattle populations using genomic information.PloS one · 2018Article
- Population genomics of Fusarium graminearum reveals signatures of divergent evolution within a major cereal pathogen.PloS one · 2018Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
A critically important challenge in empirical population genetics is distinguishing neutral nonequilibrium processes from selective forces that produce similar patterns of variation. We here examine the extent to which linkage disequilibrium (i.e., nonrandom associations between markers) improves this discrimination. We show that patterns of linkage disequilibrium recently proposed to be unique to hitchhiking models are replicated under nonequilibrium neutral models. We also demonstrate that jointly considering spatial patterns of association among variants alongside the site-frequency spectrum is nonetheless of value. Through a comparison of models of equilibrium neutrality, nonequilibrium neutrality, equilibrium hitchhiking, nonequilibrium hitchhiking, and recurrent hitchhiking, we evaluate a linkage disequilibrium (LD) statistic (omega(max)) that appears to have power to identify regions recently shaped by positive selection. Most notably, for demographic parameters relevant to non-African populations of Drosophila melanogaster, we demonstrate that selected loci are distinguishable from neutral loci using this statistic.
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