File:Correspondence analysis plot for all subpopulations in the Japan-MICC.png

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English: Correspondence analysis plot of the first and second principal components for all subpopulations in the J-MICC (Japan Multi-Institutional Collaborative Cohort).

Correspondence analysis was conducted using 222 loci for six subpopulations (Kanto-Koshinetsu, Tokai-Hokuriku, Kinki, Chugoku-Shikoku, Kyushu and the Amami Islands) in the J-MCC. The scree plot is shown in the lower right corner of this figure.

Although PCA did not clearly separate the Amami Islanders from the other subpopulations of the mainland, CA did clearly separate the Amami Islanders from the other subpopulations. As shown in the scree plot in the lower right portion of the figure, the first principal component accounts for a vast majority (≈75%) of the variability; the separation between the Amami Islanders and the rest of the subpopulations was described by this key principal axis.
Date Published: April 3, 2012
Source Nishiyama T, Kishino H, Suzuki S, Ando R, Niimura H, Uemura H, et al. (2012) Detailed Analysis of Japanese Population Substructure with a Focus on the Southwest Islands of Japan. PLoS ONE 7(4): e35000. doi:10.1371/journal.pone.0035000 http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0035000
Author Takeshi Nishiyama, Hirohisa Kishino, Sadao Suzuki, Ryosuke Ando, Hideshi Niimura, Hirokazu Uemura, Mikako Horita, Keizo Ohnaka, Nagato Kuriyama, Haruo Mikami, Naoyuki Takashima, Keitaro Mastuo, Yin Guang, Kenji Wakai, Nobuyuki Hamajima, Hideo Tanaka, for the J-MICC Study Group
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(Reusing this file)		 This is an open-access article distributed under the terms of the Creative Commons Attribution License
Other versions
  • Geographic locations of the populations
    Geographic locations of the populations
  • Correspondence analysis
    Correspondence analysis
  • Correspondence analysis
    Correspondence analysis
  • PCA
    PCA
  • PCA
    PCA
  • Fst
    Fst
  • Heterozygosity
    Heterozygosity
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