ArticleMolecular biology and evolution2014
On detecting incomplete soft or hard selective sweeps using haplotype structure.
Article in Molecular biology and evolution, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 238 papers.
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Who cites it
238 citing papers in PubMed.
- Allelic gene conversion softens selective sweeps.Genetics · 2026Article
- Human Genetic Variation Associates With Infection by Derived Ugandan M. tuberculosis Lineage.The Journal of infectious diseases · 2026Article
- Genomic insights into natural selection in recent human history.Nature reviews. Genetics · 2026Review
- Genetic trade-offs in fertility and longevity explain the maintenance of disease-associated alleles in humans.Nature ecology & evolution · 2026Article
- Large-Scale Genomics Reveals Three-Source Ancestry and Layered Adaptation to High Altitude in Tibetan Chickens.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Population genomics of Plasmodium malariae from 4 African countries.JCI insight · 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
- Article
- Haplotype-Based Models Improve Sweep Detection in Ancient Populations with Complex Demography.bioRxiv : the preprint server for biology · 2026Article
- Extensive antagonistic variants across the human genome.Nature communications · 2026Article
- Different Paths, Similar Pressures: Divergent Drivers of Genetic Diversity Despite Convergent Genomic Signatures of Selection in Response to Urban Intensity in Two Oligolectic Bee Species.Molecular ecology · 2026Article
- Integrative evidence reveals adaptive divergence and speciation in gentoo penguins.Communications biology · 2026Article
- Soft Selective Sweeps Predominate in the Yellow Fever Mosquito Aedes aegypti.Molecular biology and evolution · 2026Article
- Article
- Genome-Wide Insights into Intermittent Milking Behavior of Pandharpuri Buffalo.Current issues in molecular biology · 2026Article
- Bovine Genome Database: new curated collection of selective sweeps in bovine populations across the world.Nucleic acids research · 2026Article
- Selection scans and downstream analysis with selscan.Human population genetics and genomics · 2026Article
- Article
- Distinct Genetic Footprint of Adaptation Observed WithinResearch and reports in tropical medicine · 2026Article
- Genomic insights on conservation priorities for North Sea houting and European lake whitefish (Coregonus spp.).Molecular ecology · 2025Article
178 more citing papers are in PubMed but not listed here.
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We present a new haplotype-based statistic (nSL) for detecting both soft and hard sweeps in population genomic data from a single population. We compare our new method with classic single-population haplotype and site frequency spectrum (SFS)-based methods and show that it is more robust, particularly to recombination rate variation. However, all statistics show some sensitivity to the assumptions of the demographic model. Additionally, we show that nSL has at least as much power as other methods under a number of different selection scenarios, most notably in the cases of sweeps from standing variation and incomplete sweeps. This conclusion holds up under a variety of demographic models. In many aspects, our new method is similar to the iHS statistic; however, it is generally more robust and does not require a genetic map. To illustrate the utility of our new method, we apply it to HapMap3 data and show that in the Yoruban population, there is strong evidence of selection on genes relating to lipid metabolism. This observation could be related to the known differences in cholesterol levels, and lipid metabolism more generally, between African Americans and other populations. We propose that the underlying causes for the selection on these genes are pleiotropic effects relating to blood parasites rather than their role in lipid metabolism.
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