ArticleGenetics2009
Local phylogeny mapping of quantitative traits: higher accuracy and better ranking than single-marker association in genomewide scans.
Article in Genetics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed, 23 citations in OpenAlex.
- Tree-based QTL mapping with expected local genetic relatedness matrices.American journal of human genetics · 2023Article
- Tree-based QTL mapping with expected local genetic relatedness matrices.bioRxiv : the preprint server for biology · 2023Article
- A consistent approach to the genotype encoding problem in a genome-wide association study of continuous phenotypes.PloS one · 2020Article
- Mapping the genomic architecture of adaptive traits with interspecific introgressive origin: a coalescent-based approach.BMC genomics · 2016Article
- Comparing performance of non-tree-based and tree-based association mapping methods.BMC proceedings · 2016Article
- Genome-wide inference of ancestral recombination graphs.PLoS genetics · 2014Article
- Using ancestral information to detect and localize quantitative trait loci in genome-wide association studies.BMC bioinformatics · 2013Article
- HTreeQA: Using Semi-Perfect Phylogeny Trees in Quantitative Trait Loci Study on Genotype Data.G3 (Bethesda, Md.) · 2012Article
- phenosim--A software to simulate phenotypes for testing in genome-wide association studies.BMC bioinformatics · 2011Article
- Local genealogies in a linear mixed model for genome-wide association mapping in complex pedigreed populations.PloS one · 2011Article
- Genome-wide compatible SNP intervals and their properties.The 2010 ACM International Conference on Bioinformatics and Computational Biology : ACM-BCB 2010 : Niagara Falls, New York, U.S.A., August 2-4, 2010. ACM International Conference on Bioinformatics and Computational Biology (1st : 2010 :... · 2010Article
- The diverse applications of cladistic analysis of molecular evolution, with special reference to nested clade analysis.International journal of molecular sciences · 2010Review
Corrections and comments
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We present a new method, termed QBlossoc, for linkage disequilibrium (LD) mapping of genetic variants underlying a quantitative trait. The method uses principles similar to a previously published method, Blossoc, for LD mapping of case/control studies. The method builds local genealogies along the genome and looks for a significant clustering of quantitative trait values in these trees. We analyze its efficiency in terms of localization and ranking of true positives among a large number of negatives and compare the results with single-marker approaches. Simulation results of markers at densities comparable to contemporary genotype chips show that QBlossoc is more accurate in localization of true positives as expected since it uses the additional information of LD between markers simultaneously. More importantly, however, for genomewide surveys, QBlossoc places regions with true positives higher on a ranked list than single-marker approaches, again suggesting that a true signal displays itself more strongly in a set of adjacent markers than a spurious (false) signal. The method is both memory and central processing unit (CPU) efficient. It has been tested on a real data set of height data for 5000 individuals measured at approximately 317,000 markers and completed analysis within 5 CPU days.
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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.