ArticleMolecular biology and evolution2018
Estimating Time to the Common Ancestor for a Beneficial Allele.
Article in Molecular biology and evolution, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed.
- Population Genomics Insights into Pharmacogenomic Differentiation Between East Asians and Europeans.Clinical pharmacology and therapeutics · 2026Article
- Parallel and non-parallel features of adaptive radiation in Yucatán pupfishes.bioRxiv : the preprint server for biology · 2025Article
- Whole-Genome Data to Investigate Recent and Historical Dog Introgression Patterns in Italian Wolves.Ecology and evolution · 2025Article
- How Everything Is Connected to Everything Else - Population-Specific Connections between Adaptive Evolution, Disease Susceptibility, and Drug Responsiveness.Advanced genetics (Hoboken, N.J.) · 2025Article
- Ancient dog introgression into the Iberian wolf genome may have facilitated adaptation to human-dominated landscapes.Genome research · 2025Article
- Neanderthal adaptive introgression shapedProceedings of the National Academy of Sciences of the United States of America · 2025Article
- Direct Measurement of the Mutation Rate and Its Evolutionary Consequences in a Critically Endangered Mollusk.Molecular biology and evolution · 2025Article
- Asian-European differentiation of schizophrenia-associated genes driven by admixture and natural selection.iScience · 2024Article
- Genetic Origins and Adaptive Evolution of the Deng People on the Tibetan Plateau.Molecular biology and evolution · 2023Article
- Spatial and temporal diversity of positive selection on shared haplotypes at the PSCA locus among worldwide human populations.Heredity · 2023Article
- Archaic introgression contributed to the pre-agriculture adaptation of vitamin B1 metabolism in East Asia.iScience · 2022Article
- Article
- Emerging biological archives can reveal ecological and climatic change in Antarctica.Global change biology · 2022Review
- Evolutionary responses of a reef-building coral to climate change at the end of the last glacial maximum.Molecular biology and evolution · 2022Article
- Genetic basis of speciation and adaptation: from loci to causative mutations.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2022Article
- Genomic insights into positive selection during barley domestication.BMC plant biology · 2022Article
- We get by with a little help from our friends: shared adaptive variation provides a bridge to novel ecological specialists during adaptive radiation.Proceedings. Biological sciences · 2022Article
- Article
- Positive selection acts on regulatory genetic variants in populations of European ancestry that affect ALDH2 gene expression.Scientific reports · 2022Article
- PopHumanVar: an interactive application for the functional characterization and prioritization of adaptive genomic variants in humans.Nucleic acids research · 2022Article
Corrections and comments
- Erratum issued
Authors and funding
4 authors.
Funding
Abstract
The haplotypes of a beneficial allele carry information about its history that can shed light on its age and the putative cause for its increase in frequency. Specifically, the signature of an allele's age is contained in the pattern of variation that mutation and recombination impose on its haplotypic background. We provide a method to exploit this pattern and infer the time to the common ancestor of a positively selected allele following a rapid increase in frequency. We do so using a hidden Markov model which leverages the length distribution of the shared ancestral haplotype, the accumulation of derived mutations on the ancestral background, and the surrounding background haplotype diversity. Using simulations, we demonstrate how the inclusion of information from both mutation and recombination events increases accuracy relative to approaches that only consider a single type of event. We also show the behavior of the estimator in cases where data do not conform to model assumptions, and provide some diagnostics for assessing and improving inference. Using the method, we analyze population-specific patterns in the 1000 Genomes Project data to estimate the timing of adaptation for several variants which show evidence of recent selection and functional relevance to diet, skin pigmentation, and morphology in humans.
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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.