ArticleGenetics2016
Sporadic, Global Linkage Disequilibrium Between Unlinked Segregating Sites.
Article in Genetics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers, 1 of them a synthesis that pooled it.
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Who cites it
12 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Genetic association of BIN1 and GAB2 in Alzheimer's disease: A meta-analysis and systematic review.Geriatrics & gerontology international · 2021Pooled it
- SLiM 5: Eco-evolutionary Simulations Across Multiple Chromosomes and Full Genomes.Molecular biology and evolution · 2026Article
- Genomic determinants, architecture, and constraints in drought-related traits in Corymbia calophylla.BMC genomics · 2024Article
- Evaluation of vicinity-based hidden Markov models for genotype imputation.BMC bioinformatics · 2022Article
- Whole genome resequencing reveals signatures of rapid selection in a virus-affected commercial fishery.Molecular ecology · 2022Article
- Integrating genomics and multivariate evolutionary quantitative genetics: a case study of constraints on sexual selection inProceedings. Biological sciences · 2021Article
- Genome-wide association multi-locus and multi-variate linear mixed models reveal two linked loci with major effects on partial resistance of apricot to bacterial canker.BMC plant biology · 2019Article
- Genome-Wide Association Analyses in the Model RhizobiummSphere · 2018Article
- Turning Vice into Virtue: Using Batch-Effects to Detect Errors in Large Genomic Data Sets.Genome biology and evolution · 2018Article
- Select and resequence reveals relative fitness of bacteria in symbiotic and free-living environments.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Charting the genotype-phenotype map: lessons from the Drosophila melanogaster Genetic Reference Panel.Wiley interdisciplinary reviews. Developmental biology · 2018Review
- The Genetic Basis of Natural Variation in Drosophila (Diptera: Drosophilidae) Virgin Egg Retention.Journal of insect science (Online) · 2017Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Demographic, genetic, or stochastic factors can lead to perfect linkage disequilibrium (LD) between alleles at two loci without respect to the extent of their physical distance, a phenomenon that Lawrence et al. (2005a) refer to as "genetic indistinguishability." This phenomenon can complicate genotype-phenotype association testing by hindering the ability to localize causal alleles, but has not been thoroughly explored from a theoretical perspective or using large, dense whole-genome polymorphism data sets. We derive a simple theoretical model of the prevalence of genetic indistinguishability between unlinked loci and verify its accuracy via simulation. We show that sample size and minor allele frequency are the major determinants of the prevalence of perfect LD between unlinked loci but that demographic factors, such as deviations from random mating, can produce significant effects as well. Finally, we quantify this phenomenon in three model organisms and find thousands of pairs of moderate-frequency ([Formula: see text]) genetically indistinguishable variants in relatively large data sets. These results clarify a previously underexplored population genetic phenomenon with important implications for association studies and define conditions under which it is likely to manifest.
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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.