Source - http://dienekes.blogspot.fr/2014/06/ancient-dna-from-bronze-age-altai.html
Two observations: it seems that West/East Eurasian Y chromosomes were sometimes associated with East/West mtDNA and vice versa, so these samples don't appear to be two disjoint West/East Eurasian populations, but some mixing took place. Also, the pigmentation estimates are mainly brown eyes (one blue-eyed individual) and black/dark brown hair (although both brown/dark blond were present).
The STRUCTURE results (which should be interpreted with great caution because of the small number of autosomal loci used) do suggest that this was a population that was more West than East Eurasian autosomally.
Forensic Science International: Genetics Received 2 January 2014; received in revised form 21 May 2014; accepted 25 May 2014. published online 04 June 2014.
Strong genetic admixture in the Altai at the Middle Bronze Age revealed by uniparental and ancestry informative markers
Clémence Hollard et al.
The Altai Mountains have been a long term boundary zone between the Eurasian Steppe populations and South and East Asian populations. To disentangle some of the historical population movements in this area, 14 ancient human specimens excavated in the westernmost part of the Mongolian Altai were studied. Thirteen of them were dated from the Middle to the End of the Bronze Age and one of them to the Eneolithic period. The environmental conditions encountered in this region led to the good preservation of DNA in the human remains. Therefore, a multi-markers approach was adopted for the genetic analysis of identity, ancestry and phenotype markers. Mitochondrial DNA analyses revealed that the ancient Altaians studied carried both Western (H, U, T) and Eastern (A, C, D) Eurasian lineages. In the same way, the patrilineal gene pool revealed the presence of different haplogroups (Q1a2a1-L54, R1a1a1b2-Z93 and C), probably marking different origins for the male paternal lineages. To go further in the search of the origin of these ancient specimens, phenotypical characters (ie: hair and eye colour) were determined. For this purpose, we adapted the HIrisPlex assay recently described to MALDI-TOF mass spectrometry. In addition, some ancestry informative markers were analyzed with this assay. The results revealed mixed phenotypes among this group confirming the probable admixed ancestry of the studied Altaian population at the Middle Bronze Age. The good results obtained from ancient DNA samples suggest that this approach might be relevant for forensic casework too.