Tag SNP selection for Finnish individuals based on the CEPH Utah HapMap database
dc.contributor.author | Willer, Cristen J. | en_US |
dc.contributor.author | Scott, Laura J. | en_US |
dc.contributor.author | Bonnycastle, Lori L. | en_US |
dc.contributor.author | Jackson, Anne U. | en_US |
dc.contributor.author | Chines, Peter S. | en_US |
dc.contributor.author | Pruim, Randall | en_US |
dc.contributor.author | Bark, Craig W. | en_US |
dc.contributor.author | Tsai, Ya-Yu | en_US |
dc.contributor.author | Pugh, Elizabeth W. | en_US |
dc.contributor.author | Doheny, Kimberly F. | en_US |
dc.contributor.author | Kinnunen, Leena | en_US |
dc.contributor.author | Mohlke, Karen L. | en_US |
dc.contributor.author | Valle, Timo T. | en_US |
dc.contributor.author | Bergman, Richard N. | en_US |
dc.contributor.author | Tuomilehto, Jaakko | en_US |
dc.contributor.author | Collins, Francis S. | en_US |
dc.contributor.author | Boehnke, Michael | en_US |
dc.date.accessioned | 2007-03-19T17:26:44Z | |
dc.date.available | 2007-03-19T17:26:44Z | |
dc.date.issued | 2006-02 | en_US |
dc.identifier.citation | Willer, Cristen J.; Scott, Laura J.; Bonnycastle, Lori L.; Jackson, Anne U.; Chines, Peter; Pruim, Randall; Bark, Craig W.; Tsai, Ya-Yu; Pugh, Elizabeth W.; Doheny, Kimberly F.; Kinnunen, Leena; Mohlke, Karen L.; Valle, Timo T.; Bergman, Richard N.; Tuomilehto, Jaakko; Collins, Francis S.; Boehnke, Michael (2006)."Tag SNP selection for Finnish individuals based on the CEPH Utah HapMap database." Genetic Epidemiology 30(2): 180-190. <http://hdl.handle.net/2027.42/49528> | en_US |
dc.identifier.issn | 0741-0395 | en_US |
dc.identifier.issn | 1098-2272 | en_US |
dc.identifier.uri | https://hdl.handle.net/2027.42/49528 | |
dc.identifier.uri | http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=retrieve&db=pubmed&list_uids=16374835&dopt=citation | en_US |
dc.description.abstract | The pattern and nature of linkage disequilibrium in the human genome is being studied and catalogued as part of the International HapMap Project [:2003 Nature 426:789–796]. A key goal of the HapMap Project is to enable identification of tag single nucleotide polymorphisms (SNPs) that capture a substantial portion of common human genetic variability while requiring only a small fraction of SNPs to be genotyped [International HapMap Consortium, 2005: Nature 437:1299–1320]. In the current study, we examined the effectiveness of using the CEU HapMap database to select tag SNPs for a Finnish sample. We selected SNPs in a 17.9-Mb region of chromosome 14 based on pairwise linkage disequilibrium (r 2 ) estimates from the HapMap CEU sample, and genotyped 956 of these SNPs in 1,425 Finnish individuals. An excess of SNPs showed significantly different allele frequencies between the HapMap CEU and the Finnish samples, consistent with population-specific differences. However, we observed strong correlations between the two samples for estimates of allele frequencies, r 2 values, and haplotype frequencies. Our results demonstrate that the HapMap CEU samples provide an adequate basis for tag SNP selection in Finnish individuals, without the need to create a map specifically for the Finnish population, and suggest that the four-population HapMap data will provide useful information for tag SNP selection beyond the specific populations from which they were sampled. Genet. Epidemiol . 2006. © 2005 Wiley-Liss, Inc. | en_US |
dc.format.extent | 3271921 bytes | |
dc.format.extent | 3118 bytes | |
dc.format.mimetype | application/pdf | |
dc.format.mimetype | text/plain | |
dc.publisher | Wiley Subscription Services, Inc., A Wiley Company | en_US |
dc.subject.other | Life and Medical Sciences | en_US |
dc.subject.other | Genetics | en_US |
dc.title | Tag SNP selection for Finnish individuals based on the CEPH Utah HapMap database | en_US |
dc.type | Article | en_US |
dc.rights.robots | IndexNoFollow | en_US |
dc.subject.hlbsecondlevel | Biological Chemistry | en_US |
dc.subject.hlbsecondlevel | Genetics | en_US |
dc.subject.hlbsecondlevel | Molecular, Cellular and Developmental Biology | en_US |
dc.subject.hlbtoplevel | Health Sciences | en_US |
dc.subject.hlbtoplevel | Science | en_US |
dc.description.peerreviewed | Peer Reviewed | en_US |
dc.contributor.affiliationum | Department of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor, Michigan ; School of Public Health, University of Michigan, 1420 Washington Heights, Ann Arbor, MI 48109 | en_US |
dc.contributor.affiliationum | Department of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor, Michigan | en_US |
dc.contributor.affiliationum | Department of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor, Michigan | en_US |
dc.contributor.affiliationum | Department of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor, Michigan ; Department of Mathematics and Statistics, Calvin College, Grand Rapids, Michigan | en_US |
dc.contributor.affiliationum | Department of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor, Michigan | en_US |
dc.contributor.affiliationother | Genome Technology Branch, National Human Genome Research Institute, Bethesda, Maryland | en_US |
dc.contributor.affiliationother | Genome Technology Branch, National Human Genome Research Institute, Bethesda, Maryland | en_US |
dc.contributor.affiliationother | Center for Inherited Disease Research, Johns Hopkins University School of Medicine, Baltimore, Maryland | en_US |
dc.contributor.affiliationother | Center for Inherited Disease Research, Johns Hopkins University School of Medicine, Baltimore, Maryland | en_US |
dc.contributor.affiliationother | Center for Inherited Disease Research, Johns Hopkins University School of Medicine, Baltimore, Maryland | en_US |
dc.contributor.affiliationother | Center for Inherited Disease Research, Johns Hopkins University School of Medicine, Baltimore, Maryland | en_US |
dc.contributor.affiliationother | Diabetes and Genetic Epidemiology Unit, Department of Epidemiology and Health Promotion, National Public Health Institute, Helsinki, Finland | en_US |
dc.contributor.affiliationother | Department of Genetics, University of North Carolina, Chapel Hill, North Carolina | en_US |
dc.contributor.affiliationother | Diabetes and Genetic Epidemiology Unit, Department of Epidemiology and Health Promotion, National Public Health Institute, Helsinki, Finland | en_US |
dc.contributor.affiliationother | Department of Physiology and Biophysics, Keck School of Medicine, University of Southern California, Los Angeles, California | en_US |
dc.contributor.affiliationother | Diabetes and Genetic Epidemiology Unit, Department of Epidemiology and Health Promotion, National Public Health Institute, Helsinki, Finland ; Department of Public Health, University of Helsinki, Helsinki, Finland ; South Ostrobothnia Central Hospital, SeinÄjoki, Finland | en_US |
dc.contributor.affiliationother | Genome Technology Branch, National Human Genome Research Institute, Bethesda, Maryland | en_US |
dc.identifier.pmid | 16374835 | en_US |
dc.description.bitstreamurl | http://deepblue.lib.umich.edu/bitstream/2027.42/49528/1/20131_ftp.pdf | en_US |
dc.identifier.doi | http://dx.doi.org/10.1002/gepi.20131 | en_US |
dc.identifier.source | Genetic Epidemiology | en_US |
dc.owningcollname | Interdisciplinary and Peer-Reviewed |
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