ArticleAmerican journal of human genetics2002
Fine-scale mapping of disease loci via shattered coalescent modeling of genealogies.
Article in American journal of human genetics, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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Who cites it
52 citing papers in PubMed.
- Diversity of CFTR variants across ancestries characterized using 454,727 UK biobank whole exome sequences.Genome medicine · 2024Article
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- 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
- High-throughput inference of pairwise coalescence times identifies signals of selection and enriched disease heritability.Nature genetics · 2018Article
- Estimating Time to the Common Ancestor for a Beneficial Allele.Molecular biology and evolution · 2018Article
- New Genetic Approaches to AD: Lessons from APOE-TOMM40 Phylogenetics.Current neurology and neuroscience reports · 2016Review
- Reflections on the Field of Human Genetics: A Call for Increased Disease Genetics Theory.Frontiers in genetics · 2016Article
- The Decay of Disease Association with Declining Linkage Disequilibrium: A Fine Mapping Theorem.Frontiers in genetics · 2016Article
- Fine Mapping Causal Variants with an Approximate Bayesian Method Using Marginal Test Statistics.Genetics · 2015Article
- Bayesian inference of local trees along chromosomes by the sequential Markov coalescent.Journal of molecular evolution · 2014Article
- Inference of identity by descent in population isolates and optimal sequencing studies.European journal of human genetics : EJHG · 2013Article
- Is it rare or common?Genetic epidemiology · 2012Article
- HTreeQA: Using Semi-Perfect Phylogeny Trees in Quantitative Trait Loci Study on Genotype Data.G3 (Bethesda, Md.) · 2012Article
- Article
- Genome-wide association studies in diverse populations.Nature reviews. Genetics · 2010Review
- The diverse applications of cladistic analysis of molecular evolution, with special reference to nested clade analysis.International journal of molecular sciences · 2010Review
- Bayesian quantitative trait locus mapping based on reconstruction of recent genetic histories.Genetics · 2009Article
- A regression-based association test for case-control studies that uses inferred ancestral haplotype similarity.Annals of human genetics · 2009Article
- The limits of fine-scale mapping.Genetic epidemiology · 2009Article
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3 authors.
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Abstract
We present a Bayesian, Markov-chain Monte Carlo method for fine-scale linkage-disequilibrium gene mapping using high-density marker maps. The method explicitly models the genealogy underlying a sample of case chromosomes in the vicinity of a putative disease locus, in contrast with the assumption of a star-shaped tree made by many existing multipoint methods. Within this modeling framework, we can allow for missing marker information and for uncertainty about the true underlying genealogy and the makeup of ancestral marker haplotypes. A crucial advantage of our method is the incorporation of the shattered coalescent model for genealogies, allowing for multiple founding mutations at the disease locus and for sporadic cases of disease. Output from the method includes approximate posterior distributions of the location of the disease locus and population-marker haplotype proportions. In addition, output from the algorithm is used to construct a cladogram to represent genetic heterogeneity at the disease locus, highlighting clusters of case chromosomes sharing the same mutation. We present detailed simulations to provide evidence of improvements over existing methodology. Furthermore, inferences about the location of the disease locus are shown to remain robust to modeling assumptions.
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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.