ArticleHuman genetics2006
Efficient selection of tagging single-nucleotide polymorphisms in multiple populations.
Article in Human genetics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 68 citations in OpenAlex.
- Effects of genetic variation in H3K79 methylation regulatory genes on clinical blood pressure and blood pressure response to hydrochlorothiazide.Journal of translational medicine · 2012Trial
- Polymorphisms in Toll-like receptor genes influence antibody responses to cytomegalovirus glycoprotein B vaccine.BMC research notes · 2012Trial
- Combined influence of LDLR and HMGCR sequence variation on lipid-lowering response to simvastatin.Arteriosclerosis, thrombosis, and vascular biology · 2010 · on this mapTrial
- The rs34416841 polymorphism in the Alu element of the circSirt1 flanking intron is associated with an increased risk of myocardial infarction.BMC medical genomics · 2025Article
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- Developing a 670k genotyping array to tag ~2M SNPs across 24 horse breeds.BMC genomics · 2017Article
- Maternal and child cytokine relationship in early life is not altered by cytokine gene polymorphisms.Genes and immunity · 2016Article
- TNFAIP2 Inhibits Early TNFα-Induced NF-x03BA;B Signaling and Decreases Survival in Septic Shock Patients.Journal of innate immunity · 2016Article
- DNA mismatch repair MSH2 gene-based SNP associated with different populations.Molecular genetics and genomics : MGG · 2014Article
- Influence of ATP-binding cassette polymorphisms on neurological outcome after traumatic brain injury.Neurocritical care · 2013Article
- Impact of genetic polymorphisms of SLC2A2, SLC2A5, and KHK on metabolic phenotypes in hypertensive individuals.PloS one · 2013Article
- Prevalence and prognostic effect of sarcopenia in breast cancer survivors: the HEAL Study.Journal of cancer survivorship : research and practice · 2012Article
- California Very Preterm Birth Study: design and characteristics of the population- and biospecimen bank-based nested case-control study.Paediatric and perinatal epidemiology · 2012Article
- Genetic polymorphisms in carnitine palmitoyltransferase 1A gene are associated with variation in body composition and fasting lipid traits in Yup'ik Eskimos.Journal of lipid research · 2012Article
- Downregulated kynurenine 3-monooxygenase gene expression and enzyme activity in schizophrenia and genetic association with schizophrenia endophenotypes.Archives of general psychiatry · 2011Article
- Serotonin transporter gene polymorphisms and brain function during emotional distraction from cognitive processing in posttraumatic stress disorder.BMC psychiatry · 2011Article
- SNPPicker: high quality tag SNP selection across multiple populations.BMC bioinformatics · 2011Article
- Tight junction defects in patients with atopic dermatitis.The Journal of allergy and clinical immunology · 2011Article
- Article
- VKORC1 common variation and bone mineral density in the Third National Health and Nutrition Examination Survey.PloS one · 2010Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Common genetic polymorphism may explain a portion of the heritable risk for common diseases, so considerable effort has been devoted to finding and typing common single-nucleotide polymorphisms (SNPs) in the human genome. Many SNPs show correlated genotypes, or linkage disequilibrium (LD), suggesting that only a subset of all SNPs (known as tagging SNPs, or tagSNPs) need to be genotyped for disease association studies. Based on the genetic differences that exist among human populations, most tagSNP sets are defined in a single population and applied only in populations that are closely related. To improve the efficiency of multi-population analyses, we have developed an algorithm called MultiPop-TagSelect that finds a near-minimal union of population-specific tagSNP sets across an arbitrary number of populations. We present this approach as an extension of LD-select, a tagSNP selection method that uses a greedy algorithm to group SNPs into bins based on their pairwise association patterns, although the MultiPop-TagSelect algorithm could be used with any SNP tagging approach that allows choices between nearly equivalent SNPs. We evaluate the algorithm by considering tagSNP selection in candidate-gene resequencing data and lower density whole-chromosome data. Our analysis reveals that an exhaustive search is often intractable, while the developed algorithm can quickly and reliably find near-optimal solutions even for difficult tagSNP selection problems. Using populations of African, Asian, and European ancestry, we also show that an optimal multi-population set of tagSNPs can be substantially smaller (up to 44%) than a typical set obtained through independent or sequential selection.
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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.