A couple of posts at Dienekes' Anthropology blog doing various kinds of analysis of publicly available autosomal genome data argue that various ancestrally West African populations have signficiant (up to about 20%) Eurasian admixture. Specifically, he notes that "it appears that Yoruba are 82.9% of the San-centered component, BantuKenya 78.3%, BantuSouthAfrica 86.9%, BiakaPygmy 94.7%, Mandenka 80.9%, MbutiPygmy 97.9%."
In an earlier post, he argues that the admixture seems to have the closest connection to the Sardinian and Basque populations of Europe, which are among those with the least Indo-European impact genetically.
He also reproduces recent Denisovian and Neanderthal admixture results that were reached by direct comparisons to ancient DNA evidence with principle component analysis methods.
Dienekes argues that the absence of Eurasian admixture seen in prior studies flow from using populations like the West African Yoruba population, rather than more definitively indigenously African populations like the San, as poles of diversity measures, and because prior studies looked at subsets of genes tuned to Eurasian diversity rather than the larger set of genes showing diversity within Africa.
Uniparental genetic variation does not tend to confirm this conclusion, unless one subscribed to the controversial proposition that Y-DNA haplogroup E is a back migration of Eurasia rather than an African sourced haplogroup.
It seems premature to jump to major paradigm shaking conclusions from this single amateur data run, which is at odds with most of the prior literature on the subject, but it is interesting and worth further attention. The methodology is reasonably respectable, even if some nuances of it, like the use of TreeMix software to look at models with lateral gene sharing between populations, or the incorporation of ancient archaic hominin and chimpanzee genese into PCA analysis, are relatively new and may have quirks that are not yet terribly well understood.
The TreeMix software itself has disclaimers about the limitations of its methods in admixture events that don't closely approximate the unidirection, effectively instantaneous, and reasonable recent (by population genetics standard) assumption built into its models. For example, it could be that what Dienekes is seeing is not admixture, but a shared common origin in a proto-Eurasian population in Africa that post-dates the divergence of San and Pygmy populations from other populations in Africa, one branch of which expanded into East African and another branch of which expanded into West Africa.