ArticleGenome biology2020
Stairway Plot 2: demographic history inference with folded SNP frequency spectra.
Article in Genome biology, 2020. 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 215 papers.
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Who cites it
215 citing papers in PubMed.
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- Advancing Marine Mammal Conservation Through Omics Tools and Integration of Indigenous Ecological Knowledge.Molecular ecology · 2026Review
- Genomics Reveal Population Crash and Range Contraction in Elusive FijianEcology and evolution · 2026Article
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- Bottlenecked but Booming: Strong Inbreeding in a Highly Invasive Freshwater Mussel.Molecular ecology · 2026Article
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- Inferring the demographic history of Chinese and Indian rhesus macaque (Macaca mulatta) populations from PacBio HiFi long-read sequencing data.Molecular biology and evolution · 2026Article
- Population genomics reveals multi-scale mechanisms sustaining schistosomiasis re-emergence in a near-elimination setting.PLoS neglected tropical diseases · 2026Article
- Genomic diversification between aposematic and cryptic phenotypes of Oophaga granulifera (Anura: Dendrobatidae).Scientific reports · 2026Article
- Repeated cases of allopatric divergence and secondary contact in cattail (Typha) speciation.Heredity · 2026Article
- Multiple Eurasian Origins and Admixture Shaped the Genomic Legacy of the House Mouse Invasion in Africa.Molecular ecology · 2026Article
- Within-Island Diversification Generates Lineage-Specific Climate Vulnerability: Insights From the Taiwan-Endemic Formosan Duke.Evolutionary applications · 2026Article
- Conservation genetics and genetic vulnerability of Craigia yunnanensis (Malvaceae), a relict plant species with extremely small populations from Southwest China.Annals of botany · 2026Article
- A genomic perspective on adaptation to heterogeneous environments for Cycas segmentifida (Cycadaceae), an endemic cycad in southwest China.Annals of botany · 2026Article
- Phylogeographic history of the ring distribution inZoological research · 2026Article
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- Why there are so many definitions of fitness in models.Genetics · 2026Review
- Severe bottleneck of ancient Homo populations: insights from computational modeling and relevant fossil evidence.Molecular biology and evolution · 2026Article
- Population Collapse of the Spidery Wattle (Ecology and evolution · 2026Article
- Transcriptomic genotyping elucidates the population structure and demographic history of the endangered poison frog Oophaga vicentei (Anura: Dendrobatidae).BMC genomics · 2026Article
155 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
2 authors.
Funding
Abstract
Inferring the demographic histories of populations has wide applications in population, ecological, and conservation genomics. We present Stairway Plot 2, a cross-platform program package for this task using SNP frequency spectra. It is based on a nonparametric method with the capability of handling folded SNP frequency spectra (that is, when the ancestral alleles of the SNPs are unknown) of thousands of samples produced with genotyping-by-sequencing technologies; therefore, it is particularly suitable for nonmodel organisms.
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