Using ancestry-informative markers to identify fine structure across 15 populations of European origin

Giovanni Gambaro, Laura M. Huckins, Vesna Boraska, Christopher S. Franklin, James A. B. Floyd, Lorraine Southam, Patrick F. Sullivan, Cynthia M. Bulik, David A. Collier, Chris Tyler-Smith, Eleftheria Zeggini, Ioanna Tachmazidou, L. M. Thornton, N. William Rayner, K. L. Klump, J. Treasure, U. Schmidt, F. Tozzi, K. Kiezebrink, J. HebebrandP. Gorwood, R. A.H. Adan, M. J.H. Kas, A. Favaro, P. Santonastaso, F. Fernández-Aranda, M. Gratacos, F. Rybakowski, M. Dmitrzak-Weglarz, J. Kaprio, A. Keski-Rahkonen, A. Raevuori, E. F. Van Furth, M. C.T. Slof-Op T Landt, J. I. Hudson, T. Reichborn-Kjennerud, G. P.S. Knudsen, P. Monteleone, A. S. Kaplan, A. Karwautz, H. Hakonarson, W. H. Berrettini, Y. Guo, D. Li, N. J. Schork, G. Komaki, T. Ando, H. Inoko, T. Esko, K. Fischer, K. Männik, A. Metspalu, J. H. Baker, R. D. Cone, J. Dackor, J. E. Desocio, C. E. Hilliard, J. K. O'Toole, J. Pantel, J. P. Szatkiewicz, C. Taico, S. Zerwas, S. E. Trace, O. S.P. Davis, S. Helder, K. Bühren, R. Burghardt, M. De Zwaan, K. Egberts, S. Ehrlich, B. Herpertz-Dahlmann, W. Herzog, H. Imgart, S. Scherag, S. Zipfel, C. Boni, N. Ramoz, A. Versini, M. K. Brandys, U. N. Danner, C. De Kovel, J. Hendriks, B. P.C. Koeleman, R. A. Ophoff, E. Strengman, A. A. Van Elburg, A. Bruson, M. Clementi, D. Degortes, M. Forzan, E. Tenconi, E. Docampo, G. Escaramís, S. Jiménez-Murcia, J. Lissowska, A. Rajewski, N. Szeszenia-Dabrowska, A. Slopien, J. Hauser, L. Karhunen, I. Meulenbelt, P. E. Slagboom, A. Tortorella, M. Maj, G. Dedoussis, D. Dikeos, F. Gonidakis, K. Tziouvas, A. Tsitsika, H. Papezova, L. Slachtova, D. Martaskova, J. L. Kennedy, R. D. Levitan, Z. Yilmaz, J. Huemer, D. Koubek, E. Merl, G. Wagner, P. Lichtenstein, G. Breen, S. Cohen-Woods, A. Farmer, P. Mcguffin, S. Cichon, I. Giegling, S. Herms, D. Rujescu, S. Schreiber, H. E. Wichmann, C. Dina, R. Sladek, N. Soranzo, A. Julia, S. Marsal, Ra Rabionet, V. Gaborieau, D. M. Dick, A. Palotie, S. Ripatti, E. Widén, O. A. Andreassen, T. Espeseth, A. Lundervold, I. Reinvang, V. M. Steen, S. Le Hellard, M. Mattingsdal, I. Ntalla, V. Bencko, L. Foretova, V. Janout, M. Navratilova, S. Gallinger, D. Pinto, S. W. Scherer, H. Aschauer, L. Carlberg, A. Schosser, L. Alfredsson, B. Ding, L. Klareskog, L. Padyukov, C. Finan, G. Kalsi, M. Roberts, D. W. Logan, L. Peltonen, G. R.S. Ritchie, P. Courtet, S. Guillame, I. Jaussent, J. C. Barrett, X. Estivill, A. Hinney, C. M. Bulik, Ralph Mcginnis, Jennifer Sambrook, Jonathan Stephens, Willem H Ouwehand, Wendy L Mcardle, Susan M Ring, David P Strachan, Graeme Alexander, Peter J Conlon, Anna Dominiczak, Carl A Anderson, Adrian Hill, Cordelia Langford, Graham Lord, Alexander P Maxwell, Linda Morgan, Richard N Sandford, Neil Sheerin, Fredrik O Vannberg, Hannah Blackburn, Wei-Min Chen, Sarah Edkins, Mathew Gillman, Emma Gray, Sarah E Hunt, Suna Onengut-Gumuscu, Simon Potter, Stephen S Rich, Douglas Simpkin, Pamela Whittaker

Risultato della ricerca: Contributo in rivistaArticolo in rivistapeer review

23 Citazioni (Scopus)

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.European Journal of Human Genetics advance online publication, 19 February 2014; doi:10.1038/ejhg.2014.1.
Lingua originaleEnglish
pagine (da-a)N/A-N/A
RivistaEuropean Journal of Human Genetics
DOI
Stato di pubblicazionePubblicato - 2014

Keywords

  • Population stratification
  • SNPne

Fingerprint

Entra nei temi di ricerca di 'Using ancestry-informative markers to identify fine structure across 15 populations of European origin'. Insieme formano una fingerprint unica.

Cita questo