ArticleNature communications2020
Factor analysis of ancient population genomic samples.
Article in Nature communications, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Ancient DNA reveals elite dynastic rule among Iron Age Eurasian Steppe nomads.Science advances · 2026Article
- Reconstruction of the lifeways of Central European Late Bronze Age communities using ancient DNA, isotope and osteoarchaeological analyses.Nature communications · 2026Article
- Genomic insights into ancestry and infectious disease in 17th-century colonial Brazil.bioRxiv : the preprint server for biology · 2025Article
- Pallidal prototypic neuron and astrocyte activities regulate flexible reward-seeking behaviors.bioRxiv : the preprint server for biology · 2025Article
- Bronze age Northern Eurasian genetics in the context of development of metallurgy and Siberian ancestry.Communications biology · 2024Article
- Methods for Assessing Population Relationships and History Using Genomic Data.Annual review of genomics and human genetics · 2023Review
- Ancient dolphin genomes reveal rapid repeated adaptation to coastal waters.Nature communications · 2023Article
- Demographic history and genetic structure in pre-Hispanic Central Mexico.Science (New York, N.Y.) · 2023Article
- Genetic adaptation to pathogens and increased risk of inflammatory disorders in post-Neolithic Europe.Cell genomics · 2023Article
- eSMC: a statistical model to infer admixture events from individual genomics data.BMC genomics · 2022Article
- Principal Component Analyses (PCA)-based findings in population genetic studies are highly biased and must be reevaluated.Scientific reports · 2022Article
- Inferring Agronomical Insights for Wheat Canopy Using Image-Based Curve FitInternational journal of genomics · 2022Article
- The diagnostic significance of integrating m6A modification and immune microenvironment features based on bioinformatic investigation in aortic dissection.Frontiers in cardiovascular medicine · 2022Article
- Integrating multi-taxon palaeogenomes and sedimentary ancient DNA to study past ecosystem dynamics.Proceedings. Biological sciences · 2021Review
- A spectral theory for Wright's inbreeding coefficients and related quantities.PLoS genetics · 2021Article
- Human ancient DNA analyses reveal the high burden of tuberculosis in Europeans over the last 2,000 years.American journal of human genetics · 2021Article
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2 authors.
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No grant is acknowledged in the PubMed record.
Abstract
The recent years have seen a growing number of studies investigating evolutionary questions using ancient DNA. To address these questions, one of the most frequently-used method is principal component analysis (PCA). When PCA is applied to temporal samples, the sample dates are, however, ignored during analysis, leading to imperfect representations of samples in PC plots. Here, we present a factor analysis (FA) method in which individual scores are corrected for the effect of allele frequency drift over time. We obtained exact solutions for the estimates of corrected factors, and we provided a fast algorithm for their computation. Using computer simulations and ancient European samples, we compared geometric representations obtained from FA with PCA and with ancestry estimation programs. In admixture analyses, FA estimates agreed with tree-based statistics, and they were more accurate than those obtained from PCA projections and from ancestry estimation programs. A great advantage of FA over existing approaches is to improve descriptive analyses of ancient DNA samples without requiring inclusion of outgroup or present-day samples.
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