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Ethiopian Genetic Diversity Reveals Linguistic Stratification and Complex Influences
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[QUOTE]Originally posted by Djehuti: [QB] ^ Indeed, I was just about to say that about k=7 being similar to the DNA Tribes SNP results. [QUOTE]Originally posted by Badumtish: [qb] Each test haplotype was compared with haplotypes from the corresponding genomic window taken from 20 individuals from each of the three reference populations (Han Chinese, French, and Yoruba). The comparison was performed by running a PCA with the use of the “princomp” function of the R package. Three reference clouds (Han Chinese, French, and Yoruba) were defined by the median and 50% confidence radius, calculated from the relevant haplotypes. The Euclidean distance between the principal component (PC) coordinates of the test haplotype and the confidence perimeter of each cloud were then calculated. Due to the similarity between the European and Asian haplotypes relative to the African haplotypes and the consequent difficulty in drawing a clear separation between the two non-African clouds, we then labeled each test 40-SNP haplotype as either “African” or “non-African” according to its position in the PCA plot, or “NA” if there was no separation between the reference clouds. The “NA” haplotypes (less than 1% of the total) were removed from the downstream analyses" (Pagani et al., 2012). [/qb][/QUOTE]This brings me back to the point of the Tishkoff study that East Africans especially Horn people are most related to Eurasians than other Africans are related to Eurasians because Eurasians descend from a subset of Horn people. Therefore, which specific SNP markers are they using to distinguish the non-Africans from Africans? There are two main Y-chromosome SNP haplogroups in Ethiopians that come to mind as being 'Eurasian', hg J and hg T. The latter is actually predominant. There are three main mitochondrial haplogroups in Ethiopia that are labeled 'Eurasian'-- N1, R0, and X. [/QB][/QUOTE]
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