ArticleNature genetics2017
Robust and scalable inference of population history from hundreds of unphased whole genomes.
Article in Nature genetics, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 503 papers.
What it found
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Who cites it
503 citing papers in PubMed.
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- Population genomics reveals multi-scale mechanisms sustaining schistosomiasis re-emergence in a near-elimination setting.PLoS neglected tropical diseases · 2026Article
- Genomic analyses of weedy rice reveal historical connections between European and northwestern Chinese rice.Plant communications · 2026Article
- A near-complete genome assembly of onion resolves its genomic architecture, origin, and evolution.Plant communications · 2026Article
- Integrating landscape genomics and machine learning to analyze the genetic structure and specific molecular markers of Chinese dairy goats (Capra hircus).Journal of animal science and biotechnology · 2026Article
- Faster inference of complex demographic models from large allele frequency spectra.Bioinformatics (Oxford, England) · 2026Article
- Homozygosity Accumulated Through Genetic Drift and Inbreeding Underpins High Mutation Load in an Endangered Beluga Whale Population.Molecular ecology · 2026Article
- Ancient Transposable Elements Sustain Global Ecological Adaptation Despite Chronically Low Nucleotide Diversity.Molecular ecology · 2026Article
- Population Decline, Inbreeding and Hybridization Shape the Genetic Vulnerability of a Critically Endangered Seabird.Molecular ecology · 2026Article
- East-west divergence and metabolic differentiation in celery domestication.Nature communications · 2026Article
- High-coverage ancient genomes reveal divergent population histories and prehistoric starch-related genetic variation in Japan.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Two telomere-to-telomere Nelumbo genome assemblies reveal domestication history and empower precision breeding.Nature communications · 2026Article
- Fixation Probabilities of Mutant Alleles in an Ecological Context.bioRxiv : the preprint server for biology · 2026Article
- Extensive parasite transmission and variation in a functional receptor associated with drug resistance in endemicScience advances · 2026Article
- Population Structure and Local Adaptation ofAnimals : an open access journal from MDPI · 2026Article
- On the use of generative models for demographic inference in malaria vectors from genomic data.G3 (Bethesda, Md.) · 2026Article
443 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors.
Funding
Abstract
It has recently been demonstrated that inference methods based on genealogical processes with recombination can uncover past population history in unprecedented detail. However, these methods scale poorly with sample size, limiting resolution in the recent past, and they require phased genomes, which contain switch errors that can catastrophically distort the inferred history. Here we present SMC++, a new statistical tool capable of analyzing orders of magnitude more samples than existing methods while requiring only unphased genomes (its results are independent of phasing). SMC++ can jointly infer population size histories and split times in diverged populations, and it employs a novel spline regularization scheme that greatly reduces estimation error. We apply SMC++ to analyze sequence data from over a thousand human genomes in Africa and Eurasia, hundreds of genomes from a Drosophila melanogaster population in Africa, and tens of genomes from zebra finch and long-tailed finch populations in Australia.
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