My parents, looking east and west

Gene Expression
By Razib Khan
Feb 28, 2011 4:20 AMNov 20, 2019 12:01 AM

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Yesterday Michelle decided to put up a post with her own analysis of her ADMIXTURE results. With that in mind, I thought I'd revisit some results from my parents. After many runs of ADMIXTURE, both by myself and Zack, some consistent differences seem to crop up. To review, one of the big surprises from genotyping my parents is that both of them have about the same "East Asian" element of ancestry which is very distinctive from the conventional South Asian mix. Because both of my parents lack any oral history of recent admixture I posited that this element may be a uniform substrate common among eastern Bengalis, and that it was absorbed during the initial period of settlement and demographic expansion on the frontier in the period between 1000-1500 A.D. By analogy, low levels of Amerindian admixture persist across Brazilians, and African admixture among Mexicans, but because the admixture dates back several hundred years it does not seem to have percolated down to the present in oral history (though some old stock Brazilians of predominantly Portuguese origin have been able to infer Amerindian ancestry by looking at the church marriage records of their ancestors, and adducing that some women were natives due to common baptismal names given to such converts). Since ADMIXTURE is sensitive to the genetic variance you throw into it in extracting out patterns, I created two pools with my parents in it. One was predominantly West Eurasian, and another was predominantly East Eurasian. In both samples my parents were Bengali A (father) and Bengali B (mother), and I included in the Gujarati_B and Pathan South Asian populations. Gujarati_B because it seems particularly South Asian, and therefore informative. The Pathan sample has less African admixture than the Sindhis or Makranis, and is not so isolated as the Kalash, Brahui, Burusho, and Baloch. For the East Eurasian sample I included Sardinians as the West Eurasian outgroup, while for the West Eurasians I included Japanese as the outgroup. Finally, I pruned the markers down to 65,000 SNPs. Below I report K = 6, as cross-validation determined that to be the optimal value for the number of populations. First, West Eurasians:

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