ArticleGenetics2014
Genome-wide linkage-disequilibrium profiles from single individuals.
Article in Genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
What it found
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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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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
22 citing papers in PubMed.
- Linkage equilibrium between rare mutations.Genetics · 2024Article
- Linkage equilibrium between rare mutations.bioRxiv : the preprint server for biology · 2024Article
- Dynamics of bacterial recombination in the human gut microbiome.PLoS biology · 2024Article
- Evolutionary Insights from a Large-Scale Survey of Population-Genomic Variation.Molecular biology and evolution · 2023Article
- Evolutionary Genomics of Sister Species Differing in Effective Population Sizes and Recombination Rates.Genome biology and evolution · 2023Article
- Evolutionary Insights from a Large-scale Survey of Population-genomic Variation.bioRxiv : the preprint server for biology · 2023Article
- Recent speciation associated with range expansion and a shift to self-fertilization in North American Arabidopsis.Nature communications · 2022Article
- The Linkage-Disequilibrium and Recombinational Landscape in Daphnia pulex.Genome biology and evolution · 2022Article
- Evolutionary Genomics of a Subdivided Species.Molecular biology and evolution · 2022Article
- Genetic Variations and mRNA Expression of GoatCells · 2022Article
- Linkage disequilibrium between rare mutations.Genetics · 2022Article
- Drivers of linkage disequilibrium across a species' geographic range.PLoS genetics · 2021Article
- Article
- ncVarDB: a manually curated database for pathogenic non-coding variants and benign controls.Database : the journal of biological databases and curation · 2020Article
- SNP variable selection by generalized graph domination.PloS one · 2019Article
- Population Genomics ofGenetics · 2017Article
- Inferring Recent Demography from Isolation by Distance of Long Shared Sequence Blocks.Genetics · 2017Article
- Genetic drift, selection and the evolution of the mutation rate.Nature reviews. Genetics · 2016Review
- Toward high-resolution population genomics using archaeological samples.DNA research : an international journal for rapid publication of reports on genes and genomes · 2016Review
- A Male-Specific Genetic Map of the Microcrustacean Daphnia pulex Based on Single-Sperm Whole-Genome Sequencing.Genetics · 2015Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Although the analysis of linkage disequilibrium (LD) plays a central role in many areas of population genetics, the sampling variance of LD is known to be very large with high sensitivity to numbers of nucleotide sites and individuals sampled. Here we show that a genome-wide analysis of the distribution of heterozygous sites within a single diploid genome can yield highly informative patterns of LD as a function of physical distance. The proposed statistic, the correlation of zygosity, is closely related to the conventional population-level measure of LD, but is agnostic with respect to allele frequencies and hence likely less prone to outlier artifacts. Application of the method to several vertebrate species leads to the conclusion that >80% of recombination events are typically resolved by gene-conversion-like processes unaccompanied by crossovers, with the average lengths of conversion patches being on the order of one to several kilobases in length. Thus, contrary to common assumptions, the recombination rate between sites does not scale linearly with distance, often even up to distances of 100 kb. In addition, the amount of LD between sites separated by <200 bp is uniformly much greater than can be explained by the conventional neutral model, possibly because of the nonindependent origin of mutations within this spatial scale. These results raise questions about the application of conventional population-genetic interpretations to LD on short spatial scales and also about the use of spatial patterns of LD to infer demographic histories.
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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.