ArticleAmerican journal of human genetics2005
Handling marker-marker linkage disequilibrium: pedigree analysis with clustered markers.
Article in American journal of human genetics, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 139 papers, 3 of them syntheses that pooled it.
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Who cites it
139 citing papers in PubMed, 3 syntheses or guidelines pooled it.
- The Influence of Age and Sex on Genetic Associations with Adult Body Size and Shape: A Large-Scale Genome-Wide Interaction Study.PLoS genetics · 2015Pooled it
- Identification of heart rate-associated loci and their effects on cardiac conduction and rhythm disorders.Nature genetics · 2013Pooled it
- Common variants at MS4A4/MS4A6E, CD2AP, CD33 and EPHA1 are associated with late-onset Alzheimer's disease.Nature genetics · 2011Pooled it
- A genome-wide scan for attention-deficit/hyperactivity disorder in 155 German sib-pairs.Molecular psychiatry · 2006Trial
- Variant Prioritization by Pedigree-Based Haplotyping.Genetic epidemiology · 2026Article
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- Improved computations for relationship inference using low-coverage sequencing data.BMC bioinformatics · 2023Article
- A 127 kb truncating deletion of PGRMC1 is a novel cause of X-linked isolated paediatric cataract.European journal of human genetics : EJHG · 2021Article
- Personalized genome structure via single gamete sequencing.Genome biology · 2021Review
- Gene-based and pathway-based testing for rare-variant association in affected sib pairs.Genetic epidemiology · 2020Article
- A Rare Variant Nonparametric Linkage Method for Nuclear and Extended Pedigrees with Application to Late-Onset Alzheimer Disease via WGS Data.American journal of human genetics · 2019Article
- Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome.Scientific reports · 2017Article
- A SLC39A8 variant causes manganese deficiency, and glycosylation and mitochondrial disorders.Journal of inherited metabolic disease · 2017Article
- Evidence for genetic regulation of the human parieto-occipital 10-Hz rhythmic activity.The European journal of neuroscience · 2016Article
- Testing Allele Transmission of an SNP Set Using a Family-Based Generalized Genetic Random Field Method.Genetic epidemiology · 2016Article
- Can whole-exome sequencing data be used for linkage analysis?European journal of human genetics : EJHG · 2016Article
- Imputing rare variants in families using a two-stage approach.BMC proceedings · 2016Article
- Collapsed haplotype pattern method for linkage analysis of next-generation sequence data.European journal of human genetics : EJHG · 2015Article
- A general model for likelihood computations of genetic marker data accounting for linkage, linkage disequilibrium, and mutations.International journal of legal medicine · 2015Article
- Human HOIP and LUBAC deficiency underlies autoinflammation, immunodeficiency, amylopectinosis, and lymphangiectasia.The Journal of experimental medicine · 2015Article
79 more citing papers are in PubMed but not listed here.
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2 authors.
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Abstract
Single-nucleotide polymorphisms (SNPs) are rapidly replacing microsatellites as the markers of choice for genetic linkage studies and many other studies of human pedigrees. Here, we describe an efficient approach for modeling linkage disequilibrium (LD) between markers during multipoint analysis of human pedigrees. Using a gene-counting algorithm suitable for pedigree data, our approach enables rapid estimation of allele and haplotype frequencies within clusters of tightly linked markers. In addition, with the use of a hidden Markov model, our approach allows for multipoint pedigree analysis with large numbers of SNP markers organized into clusters of markers in LD. Simulation results show that our approach resolves previously described biases in multipoint linkage analysis with SNPs that are in LD. An updated version of the freely available Merlin software package uses the approach described here to perform many common pedigree analyses, including haplotyping and haplotype frequency estimation, parametric and nonparametric multipoint linkage analysis of discrete traits, variance-components and regression-based analysis of quantitative traits, calculation of identity-by-descent or kinship coefficients, and case selection for follow-up association studies. To illustrate the possibilities, we examine a data set that provides evidence of linkage of psoriasis to chromosome 17.
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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.