ArticleJournal of the American Statistical Association2020
Efficiently inferring the demographic history of many populations with allele count data.
Article in Journal of the American Statistical Association, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 97 papers, 2 of them syntheses that pooled it.
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Who cites it
97 citing papers in PubMed, 2 syntheses or guidelines pooled it.
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- Population genetic considerations for using biobanks as international resources in the pandemic era and beyond.BMC genomics · 2021Pooled it
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- Faster inference of complex demographic models from large allele frequency spectra.Bioinformatics (Oxford, England) · 2026Article
- High-resolution analysis of recent population structure using rare variants.G3 (Bethesda, Md.) · 2026Article
- Population Structure of the Jewel Scarab Chrysina gloriosa.Genome biology and evolution · 2026Article
- A Rarefaction Approach to Identify Local Introgression in a Three Population Tree.bioRxiv : the preprint server for biology · 2026Article
- Haplotype-Based Models Improve Sweep Detection in Ancient Populations with Complex Demography.bioRxiv : the preprint server for biology · 2026Article
- Using drift coefficients as a basis for inferring times, effective population sizes, and genetic adaptations.Molecular biology and evolution · 2026Article
- Optimal Reference Panel Design in Ancient DNA Imputation from Coalescent Theory, Simulation, and Real Data Application with an Ancient Reference Panel.bioRxiv : the preprint server for biology · 2026Article
- The persistence and loss of hard selective sweeps amid admixture in ancient Eurasians.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Inferring hominin history with recurrent gene flow from single unphased genomes and a two-locus statistic.bioRxiv : the preprint server for biology · 2026Article
- Computing coalescence rates for complex demographies and sampling configurations.bioRxiv : the preprint server for biology · 2026Article
- A high-coverage Neandertal genome from the Altai Mountains reveals population structure among Neandertals.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- A catalogue of early diverged contemporary human genome variation reveals distinct Khoe-San populations.Nature communications · 2026Article
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- A general framework for branch length estimation in Ancestral Recombination Graphs.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Anthropocene genetic diversity loss in the marine tropics.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- A General Framework for Branch Length Estimation in Ancestral Recombination Graphs.bioRxiv : the preprint server for biology · 2025Article
37 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors.
Funding
Abstract
The sample frequency spectrum (SFS), or histogram of allele counts, is an important summary statistic in evolutionary biology, and is often used to infer the history of population size changes, migrations, and other demographic events affecting a set of populations. The expected multipopulation SFS under a given demographic model can be efficiently computed when the populations in the model are related by a tree, scaling to hundreds of populations. Admixture, back-migration, and introgression are common natural processes that violate the assumption of a tree-like population history, however, and until now the expected SFS could be computed for only a handful of populations when the demographic history is not a tree. In this article, we present a new method for efficiently computing the expected SFS and linear functionals of it, for demographies described by general directed acyclic graphs. This method can scale to more populations than p reviously possible for complex demographic histories including admixture. We apply our method to an 8-population SFS to estimate the timing and strength of a proposed "basal Eurasian" admixture event in human history. We implement and release our method in a new open-source software package momi2.
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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.