ArticleGenetics2007
Power and precision of alternate methods for linkage disequilibrium mapping of quantitative trait loci.
Article in Genetics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- Early Response QTLs and DEGs Underlying Oil Palm Resistance toMicroorganisms · 2026Article
- Five plants per RIL for phenotyping traits of high or moderate heritability ensure the power of QTL mapping in a rice MAGIC population.Molecular breeding : new strategies in plant improvement · 2022Article
- A Novel QTL for Resistance to Phytophthora Crown Rot in Squash.Plants (Basel, Switzerland) · 2021Article
- Mapping Powdery Mildew (International journal of molecular sciences · 2020Article
- Linkage disequilibrium in Brazilian Santa Inês breed, Ovis aries.Scientific reports · 2018Article
- Article
- Variation and Evolution in the Glutamine-Rich Repeat Region of Drosophila Argonaute-2.G3 (Bethesda, Md.) · 2016Article
- Multiple Linkage Disequilibrium Mapping Methods to Validate Additive Quantitative Trait Loci in Korean Native Cattle (Hanwoo).Asian-Australasian journal of animal sciences · 2015Article
- A Scale-Corrected Comparison of Linkage Disequilibrium Levels between Genic and Non-Genic Regions.PloS one · 2015Article
- Genome-wide scan of gastrointestinal nematode resistance in closed Angus population selected for minimized influence of MHC.PloS one · 2015Article
- Bayesian model selection for multiple QTLs mapping combining linkage disequilibrium and linkage.Genetics research · 2014Article
- Recovering power in association mapping panels with variable levels of linkage disequilibrium.Genetics · 2014Article
- A genome-wide association study of production traits in a commercial population of Large White pigs: evidence of haplotypes affecting meat quality.Genetics, selection, evolution : GSE · 2014Article
- Statistical distributions of test statistics used for quantitative trait association mapping in structured populations.Genetics, selection, evolution : GSE · 2012Article
- Estimates of marker effects for measures of milk flow in the Italian brown Swiss dairy cattle population.BMC veterinary research · 2012Article
- Response to genomic selection: the Bulmer effect and the potential of genomic selection when the number of phenotypic records is limiting.Genetics, selection, evolution : GSE · 2012Article
- Fine-mapping quantitative trait loci with a medium density marker panel: efficiency of population structures and comparison of linkage disequilibrium linkage analysis models.Genetics research · 2012Article
- Gene and QTL detection in a three-way barley cross under selection by a mixed model with kinship information using SNPs.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2011Article
- Construction and application for QTL analysis of a Restriction Site Associated DNA (RAD) linkage map in barley.BMC genomics · 2011Article
- Performance of single nucleotide polymorphisms versus haplotypes for genome-wide association analysis in barley.PloS one · 2010Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Linkage disequilibrium (LD) analysis in outbred populations uses historical recombinations to detect and fine map quantitative trait loci (QTL). Our objective was to evaluate the effect of various factors on power and precision of QTL detection and to compare LD mapping methods on the basis of regression and identity by descent (IBD) in populations of limited effective population size (N(e)). An 11-cM region with 6-38 segregating single-nucleotide polymorphisms (SNPs) and a central QTL was simulated. After 100 generations of random mating with N(e) of 50, 100, or 200, SNP genotypes and phenotypes were generated on 200, 500, or 1000 individuals with the QTL explaining 2 or 5% of phenotypic variance. To detect and map the QTL, phenotypes were regressed on genotypes or (assumed known) haplotypes, in comparison with the IBD method. Power and precision to detect QTL increased with sample size, marker density, and QTL effect. Power decreased with N(e), but precision was affected little by N(e). Single-marker regression had similar or greater power and precision than other regression models, and was comparable to the IBD method. Thus, for rapid initial screening of samples of adequate size in populations in which drift is the primary force that has created LD, QTL can be detected and mapped by regression on SNP genotypes without recovering haplotypes.
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