ArticleGenetics2015
Transition Densities and Sample Frequency Spectra of Diffusion Processes with Selection and Variable Population Size.
Article in Genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- The rights and wrongs of rescaling in population genetics simulations.PLoS genetics · 2026Review
- Article
- Article
- Article
- A Path Integral Approach for Allele Frequency Dynamics Under Polygenic Selection.bioRxiv : the preprint server for biology · 2024Article
- Article
- Scaling the Discrete-time Wright Fisher model to biobank-scale datasets.bioRxiv : the preprint server for biology · 2023Article
- A Nearly Neutral Model of Molecular Signatures of Natural Selection after Change in Population Size.Genome biology and evolution · 2022Article
- Evolutionary perspectives on polygenic selection, missing heritability, and GWAS.Human genetics · 2020Review
- Neutral genomic signatures of host-parasite coevolution.BMC evolutionary biology · 2019Article
- Models of archaic admixture and recent history from two-locus statistics.PLoS genetics · 2019Article
- Computing the joint distribution of the total tree length across loci in populations with variable size.Theoretical population biology · 2017Article
- Inferring the Joint Demographic History of Multiple Populations: Beyond the Diffusion Approximation.Genetics · 2017Article
- Statistical Inference in the Wright-Fisher Model Using Allele Frequency Data.Systematic biology · 2017Review
- Methylome evolution in plants.Genome biology · 2016Review
- Selection and explosive growth alter genetic architecture and hamper the detection of causal rare variants.Genome research · 2016Article
- SpectralTDF: transition densities of diffusion processes with time-varying selection parameters, mutation rates and effective population sizes.Bioinformatics (Oxford, England) · 2016Article
- Methods and models for unravelling human evolutionary history.Nature reviews. Genetics · 2015Review
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Advances in empirical population genetics have made apparent the need for models that simultaneously account for selection and demography. To address this need, we here study the Wright-Fisher diffusion under selection and variable effective population size. In the case of genic selection and piecewise-constant effective population sizes, we obtain the transition density by extending a recently developed method for computing an accurate spectral representation for a constant population size. Utilizing this extension, we show how to compute the sample frequency spectrum in the presence of genic selection and an arbitrary number of instantaneous changes in the effective population size. We also develop an alternate, efficient algorithm for computing the sample frequency spectrum using a moment-based approach. We apply these methods to answer the following questions: If neutrality is incorrectly assumed when there is selection, what effects does it have on demographic parameter estimation? Can the impact of negative selection be observed in populations that undergo strong exponential growth?
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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.