ArticleGenome research2005
Genomic scans for selective sweeps using SNP data.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 545 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
545 citing papers in PubMed.
- Allelic gene conversion softens selective sweeps.Genetics · 2026Article
- FGF7 Polymorphisms, Especially Chr7:57803771:C>T, are Associated with Lambskin Traits in Hu Sheep.Animals : an open access journal from MDPI · 2026Article
- Identification and characterization of non-canonical azole antifungal resistance pathways inmBio · 2026Article
- What has population genomics told us about the dynamics of selection and plant adaptation?Molecular biology and evolution · 2026Review
- Estimating the evolutionary fitness of specific synonymous codon changes.Molecular biology and evolution · 2026Article
- Deciphering genetic diversity and selection footprints in Rathi cattle through ddRAD-based genome-wide analysis.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Article
- Neural posterior estimation for population genetics.Genetics · 2026Article
- Popformer: Learning general signatures of positive selection with a self-supervised transformer.PLoS computational biology · 2026Article
- Article
- Genomic and transcriptomic analysis suggests potential regulatory relationships among MC1R, TUBB3, and PMEL associated with black-flecked plumage in chickens.BMC genomics · 2026Article
- Whole-Genome Resequencing Reveals Deep Genomic Differentiation and Highly Differentiated Segments Between a Composite Domestic Cattle Population and Yak from the Ili River Valley and Other Xinjiang Regions.Animals : an open access journal from MDPI · 2026Article
- Adaptive value of marginal populations: integrating selective signals, neutral processes and temporal scales.Heredity · 2026Article
- Insights into human adaptation from ancient DNA.Nature genetics · 2026Review
- Detecting Positive Selection by Modeling Structure Within Images of Genetic Variation.Genome biology and evolution · 2026Article
- Soft Selective Sweeps Predominate in the Yellow Fever Mosquito Aedes aegypti.Molecular biology and evolution · 2026Article
- Neural posterior estimation for population genetics.bioRxiv : the preprint server for biology · 2026Article
- Cis-regulatory evolution reveals sensory trade-offs as a genetic basis for temporal niche evolution in tapirs.Science advances · 2026Article
- Popformer: Learning general signatures of positive selection with a self-supervised transformer.bioRxiv : the preprint server for biology · 2026Article
- Speciation, endangerment and adaptation in limestone rocky environment ofPlant diversity · 2026Article
- Bovine Genome Database: new curated collection of selective sweeps in bovine populations across the world.Nucleic acids research · 2026Article
485 more citing papers are in PubMed but not listed here.
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Authors and funding
6 authors.
Funding
Abstract
Detecting selective sweeps from genomic SNP data is complicated by the intricate ascertainment schemes used to discover SNPs, and by the confounding influence of the underlying complex demographics and varying mutation and recombination rates. Current methods for detecting selective sweeps have little or no robustness to the demographic assumptions and varying recombination rates, and provide no method for correcting for ascertainment biases. Here, we present several new tests aimed at detecting selective sweeps from genomic SNP data. Using extensive simulations, we show that a new parametric test, based on composite likelihood, has a high power to detect selective sweeps and is surprisingly robust to assumptions regarding recombination rates and demography (i.e., has low Type I error). Our new test also provides estimates of the location of the selective sweep(s) and the magnitude of the selection coefficient. To illustrate the method, we apply our approach to data from the Seattle SNP project and to Chromosome 2 data from the HapMap project. In Chromosome 2, the most extreme signal is found in the lactase gene, which previously has been shown to be undergoing positive selection. Evidence for selective sweeps is also found in many other regions, including genes known to be associated with disease risk such as DPP10 and COL4A3.
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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.