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https://hdl.handle.net/1959.11/5237
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DC Field | Value | Language |
---|---|---|
dc.contributor.author | Zhang, Yuandan | en |
dc.contributor.author | Tier, Bruce | en |
local.source.editor | Editor(s): Alex Safari, Bill Pattie, Barrie Restall | en |
dc.date.accessioned | 2010-03-22T09:33:00Z | - |
dc.date.issued | 2009 | - |
dc.identifier.citation | Proceedings of the Association for the Advancement of Animal Breeding and Genetics, v.18, p. 243-246 | en |
dc.identifier.isbn | 9780646521039 | en |
dc.identifier.issn | 1328-3227 | en |
dc.identifier.uri | https://hdl.handle.net/1959.11/5237 | - |
dc.description.abstract | Large scale whole genome scans generate massive amounts of genotype data. It is essential to check genotype integrity and identify genotype errors prior to association analysis. Departure from Hardy-Weinberg Equilibrium has been adopted as one of the main methods to identify genotype errors. However population stratification also causes departure from Hardy-Weinberg Equilibrium, which is a disadvantage of this approach. This study used 2 sets of SNP genotypes to show that after basic editing using Call Rate and minor allele frequency, up to 13% of SNPs departed from Hardy-Weinberg Equilibrium (HWD) and about one third of these HWD SNPs could be falsely identified as genotype errors, were attributable to population subdivision (eg herd of origin, cohort) for one dataset and corresponding numbers for the second dataset are 21% and 16%, respectively. This approach can avoid improper culling of a considerable proportion of SNPs. | en |
dc.language | en | en |
dc.publisher | Association for the Advancement of Animal Breeding and Genetics (AAABG) | en |
dc.relation.ispartof | Proceedings of the Association for the Advancement of Animal Breeding and Genetics | en |
dc.title | Population stratification, not genotype error, causes some SNPs to depart from Hardy-Weinberg Equilibrium | en |
dc.type | Conference Publication | en |
dc.relation.conference | AAABG 2009: 18th Conference of the Association for the Advancement of Animal Breeding and Genetics | en |
dc.subject.keywords | Quantitative Genetics (incl Disease and Trait Mapping Genetics) | en |
local.contributor.firstname | Yuandan | en |
local.contributor.firstname | Bruce | en |
local.subject.for2008 | 060412 Quantitative Genetics (incl Disease and Trait Mapping Genetics) | en |
local.subject.seo2008 | 830399 Livestock Raising not elsewhere classified | en |
local.profile.school | Animal Genetics and Breeding Unit | en |
local.profile.school | Animal Genetics and Breeding Unit | en |
local.profile.email | yzhang4@une.edu.au | en |
local.profile.email | btier@une.edu.au | en |
local.output.category | E1 | en |
local.record.place | au | en |
local.record.institution | University of New England | en |
local.identifier.epublicationsrecord | une-20091118-110927 | en |
local.date.conference | 27th September - 2nd October, 2009 | en |
local.conference.place | Barossa Valley, Australia | en |
local.publisher.place | Armidale, Australia | en |
local.format.startpage | 243 | en |
local.format.endpage | 246 | en |
local.peerreviewed | Yes | en |
local.identifier.volume | 18 | en |
local.contributor.lastname | Zhang | en |
local.contributor.lastname | Tier | en |
dc.identifier.staff | une-id:yzhang4 | en |
dc.identifier.staff | une-id:btier | en |
local.profile.orcid | 0000-0002-1998-3313 | en |
local.profile.role | author | en |
local.profile.role | author | en |
local.identifier.unepublicationid | une:5357 | en |
dc.identifier.academiclevel | Academic | en |
dc.identifier.academiclevel | Academic | en |
local.title.maintitle | Population stratification, not genotype error, causes some SNPs to depart from Hardy-Weinberg Equilibrium | en |
local.output.categorydescription | E1 Refereed Scholarly Conference Publication | en |
local.relation.url | http://www.aaabg.org/proceedings18/files/zhang243.pdf | en |
local.relation.url | http://trove.nla.gov.au/work/36420775 | en |
local.relation.url | http://aaabg.org/aaabg18/ | en |
local.conference.details | AAABG 2009: 18th Conference of the Association for the Advancement of Animal Breeding and Genetics, Barossa Valley, Australia, 27th September - 1st October, 2009 | en |
local.search.author | Zhang, Yuandan | en |
local.search.author | Tier, Bruce | en |
local.uneassociation | Unknown | en |
local.year.published | 2009 | en |
local.date.start | 2009-09-27 | - |
local.date.end | 2009-10-02 | - |
Appears in Collections: | Animal Genetics and Breeding Unit (AGBU) Conference Publication |
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