Using ancestry-informative markers to identify fine structure across 15 populations of European origin
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- dc.contributor.author Huckins, Laura M.
- dc.contributor.author Boraska, Vesna
- dc.contributor.author Franklin, Christopher S.
- dc.contributor.author Floyd, James A. B.
- dc.contributor.author Southam, Lorraine
- dc.contributor.author GCAN
- dc.contributor.author WTCCC3
- dc.contributor.author Sullivan, Patrick F.
- dc.contributor.author Bulik, Cynthia M.
- dc.contributor.author Collier, David A.
- dc.contributor.author Tyler-Smith, Chris
- dc.contributor.author Zeggini, Eleftheria
- dc.contributor.author Tachmazidou, Ioanna
- dc.date.accessioned 2024-01-23T07:20:57Z
- dc.date.available 2024-01-23T07:20:57Z
- dc.date.issued 2014
- dc.description.abstract The Wellcome Trust Case Control Consortium 3 anorexia nervosa genome-wide association scan includes 2907 cases from 15 different populations of European origin genotyped on the Illumina 670K chip. We compared methods for identifying population stratification, and suggest list of markers that may help to counter this problem. It is usual to identify population structure in such studies using only common variants with minor allele frequency (MAF) >5%; we find that this may result in highly informative SNPs being discarded, and suggest that instead all SNPs with MAF >1% may be used. We established informative axes of variation identified via principal component analysis and highlight important features of the genetic structure of diverse European-descent populations, some studied for the first time at this scale. Finally, we investigated the substructure within each of these 15 populations and identified SNPs that help capture hidden stratification. This work can provide information regarding the designing and interpretation of association results in the International Consortia.
- dc.description.sponsorship LMH, VB, CSF, JABF, LS, CTS, IT and EZ were supported by the Wellcome Trust (098051). LMH is also supported by the MRC (MR/J500355/1), VB is also supported by Unity Through Knowledge Fund CONNECTIVITY PROGRAM (‘Gaining Experience’ Grant 2A), The National Foundation for Science, Higher Education and Technological Development of the Republic of Croatia (BRAIN GAIN- Postdoc fellowship) and CMB is supported by the Foundation of Hope.
- dc.format.mimetype application/pdf
- dc.identifier.citation Huckins LM, Boraska V, Franklin CS, Floyd JAB, Southam L, Sullivan PF, et al. Using ancestry-informative markers to identify fine structure across 15 populations of European origin. Eur J Hum Genet. 2014 Oct;22(10):1190-200. DOI: 10.1038/ejhg.2014.1
- dc.identifier.doi http://dx.doi.org/10.1038/ejhg.2014.1
- dc.identifier.issn 1018-4813
- dc.identifier.uri http://hdl.handle.net/10230/58798
- dc.language.iso eng
- dc.publisher Springer
- dc.relation.ispartof European Journal of Human Genetics. 2014 Oct;22(10):1190-200
- dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/098051
- dc.rights This work is licensed under a Creative Commons Attribution 3.0 Unported License. To view a copy of this license, visit http://creativecommons.org/licenses/by/3.0/.
- dc.rights.accessRights info:eu-repo/semantics/openAccess
- dc.rights.uri http://creativecommons.org/licenses/by/3.0/
- dc.subject.keyword Population stratification
- dc.subject.keyword AIMs
- dc.subject.keyword Principal component analysis
- dc.title Using ancestry-informative markers to identify fine structure across 15 populations of European origin
- dc.type info:eu-repo/semantics/article
- dc.type.version info:eu-repo/semantics/publishedVersion