PCA analysis of the study participants.
(<b>A</b>) PCA showing the first (X-axis) and second (Y-axis) eigenvectors plotting all 3,252 study participants (907 Crohn's disease (CD) cases and 2,345 controls) across ∼22 K unlinked SNPs indicated by light blue open circles. Also included and color-coded in the graph are the four HapMap (<a rel="nofollow" class="external free" href="http://www.hapmap.org">http://www.hapmap.org</a>) reference samples as solid triangles; <b>Europian</b> (CEPH-Utah; green), <b>African</b> (Yoruban-Nigeria, YRI; red), <b>Chinese</b> (Han Chinese in Beijing, CHB; orange) and <b>Japanese</b> (Japanese in Tokyo, JPT; dark grey); and seven Jewish samples from the Jewish Hapmap project <a rel="nofollow" class="external autonumber" href="https://dx.doi.org/10.1016/j.ajhg.2010.04.015">[1]</a> as solid circles, consisting of Ashkenazi Jews (AJ; blue), one European (Italian; purple), three Middle Eastern (Syrian; fuchsia, Iraqi; teal and Iranian; turquoise) and two Sephardic Jewish cohorts (Turkey; brown and Greek; orange). (<b>B</b>) The same analysis excluding the YRI and CHB+JPT reference panels. (<b>C</b>) A histogram of PC1 values for study participants (light blue) near the AJ cluster and intermediate between the AJ and CEU clusters. The histogram of PC1 values for the included samples show three distinct modes (Groups 1–3), with AJ reference (blue) and CEU (green) indicated.
Eimear E. Kenny, Itsik Pe'er, Amir Karban, Laurie Ozelius, Adele A. Mitchell, Sok Meng Ng, Monica Erazo, Harry Ostrer, Clara Abraham, Maria T. Abreu, Gil Atzmon, Nir Barzilai, Steven R. Brant, Susan Bressman, Edward R. Burns, Yehuda Chowers, Lorraine N. Clark, Ariel Darvasi, Dana Doheny, Richard H. Duerr, Rami Eliakim, Nir Giladi, Peter K. Gregersen, Hakon Hakonarson, Michelle R. Jones, Karen Marder, Dermot P. B. McGovern, Jennifer Mulle, Avi Orr-Urtreger, Deborah D. Proctor, Ann Pulver, Jerome I. Rotter, Mark S. Silverberg, Thomas Ullman, Stephen T. Warren, Matti Waterman, Wei Zhang, Aviv Bergman, Lloyd Mayer, Seymour Katz, Robert J. Desnick, Judy H. Cho , Inga Peter
CC BY 2.5
Kenny EE, Pe'er I, Karban A, Ozelius L, Mitchell AA, Ng SM, et al. (2012) A Genome-Wide Scan of Ashkenazi Jewish Crohn's Disease Suggests Novel Susceptibility Loci. PLoS Genet 8(3): e1002559. doi:10.1371/journal.pgen.1002559 <a rel="nofollow" class="external free" href="http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1002559">http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1002559</a>