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Article: Faster haplotype frequency estimation using unrelated subjects

TitleFaster haplotype frequency estimation using unrelated subjects
Authors
Zhao, JHSham, PC
KeywordsCase-control association analysis
Contingency table analysis
EM algorithm
Gene counting
Linkage disequilibrium
Permutation tests
Issue Date2002
PublisherS Karger AG. The Journal's web site is located at http://www.karger.com/HHE
Citation
Human Heredity, 2002, v. 53 n. 1, p. 36-41 How to Cite?
DOI: http://dx.doi.org/10.1159/000048602
AbstractLinkage disequilibrium (LD) between tightly linked loci provides fine mapping information of disease-predisposing allelic variants. The most common method of LD analysis involves unrelated cases and controls. We have previously proposed model-free and permutation tests for diseases with unknown mode of inheritance that can be applied to several highly polymorphic loci. However, performing such analyses remained computer intensive. In this report we propose a speed-up of both the gene-counting procedure and the permutation procedure. We demonstrate the improved method with an analysis of schizophrenia and human leucocyte antigen markers, and an analysis of alcoholism and mitochondrial aldehyde dehydrogenase markers. Our implementation also allows the rapid calculation of permutation-based LD measures and related statistics. Copyright © 2002 S. Karger AG, Basel.
Persistent Identifierhttp://hdl.handle.net/10722/175857
ISSN
0001-5652
2021 Impact Factor: 1.455
2020 SCImago Journal Rankings: 0.423
ISI Accession Number ID
WOS:000174728400006
References
References in Scopus

 

DC FieldValueLanguage
dc.contributor.authorZhao, JHen_US
dc.contributor.authorSham, PCen_US
dc.date.accessioned2012-11-26T09:01:51Z-
dc.date.available2012-11-26T09:01:51Z-
dc.date.issued2002en_US
dc.identifier.citationHuman Heredity, 2002, v. 53 n. 1, p. 36-41en_US
dc.identifier.issn0001-5652en_US
dc.identifier.urihttp://hdl.handle.net/10722/175857-
dc.description.abstractLinkage disequilibrium (LD) between tightly linked loci provides fine mapping information of disease-predisposing allelic variants. The most common method of LD analysis involves unrelated cases and controls. We have previously proposed model-free and permutation tests for diseases with unknown mode of inheritance that can be applied to several highly polymorphic loci. However, performing such analyses remained computer intensive. In this report we propose a speed-up of both the gene-counting procedure and the permutation procedure. We demonstrate the improved method with an analysis of schizophrenia and human leucocyte antigen markers, and an analysis of alcoholism and mitochondrial aldehyde dehydrogenase markers. Our implementation also allows the rapid calculation of permutation-based LD measures and related statistics. Copyright © 2002 S. Karger AG, Basel.en_US
dc.languageengen_US
dc.publisherS Karger AG. The Journal's web site is located at http://www.karger.com/HHEen_US
dc.relation.ispartofHuman Heredityen_US
dc.subjectCase-control association analysis-
dc.subjectContingency table analysis-
dc.subjectEM algorithm-
dc.subjectGene counting-
dc.subjectLinkage disequilibrium-
dc.subjectPermutation tests-
dc.subject.meshAlcoholism - Geneticsen_US
dc.subject.meshAldehyde Dehydrogenaseen_US
dc.subject.meshGene Frequencyen_US
dc.subject.meshGenetic Markersen_US
dc.subject.meshHla Antigensen_US
dc.subject.meshHaplotypes - Geneticsen_US
dc.subject.meshHumansen_US
dc.subject.meshLinkage Disequilibriumen_US
dc.subject.meshSchizophrenia - Geneticsen_US
dc.subject.meshStatistics As Topic - Methodsen_US
dc.titleFaster haplotype frequency estimation using unrelated subjectsen_US
dc.typeArticleen_US
dc.identifier.emailSham, PC: pcsham@hku.hken_US
dc.identifier.authoritySham, PC=rp00459en_US
dc.description.naturelink_to_subscribed_fulltexten_US
dc.identifier.doi10.1159/000048602en_US
dc.identifier.pmid11901269-
dc.identifier.scopuseid_2-s2.0-0036127943en_US
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-0036127943&selection=ref&src=s&origin=recordpageen_US
dc.identifier.volume53en_US
dc.identifier.issue1en_US
dc.identifier.spage36en_US
dc.identifier.epage41en_US
dc.identifier.isiWOS:000174728400006-
dc.publisher.placeSwitzerlanden_US
dc.identifier.f10001005037-
dc.identifier.scopusauthoridZhao, JH=7410311266en_US
dc.identifier.scopusauthoridSham, PC=34573429300en_US
dc.identifier.issnl0001-5652-

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