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Ancient Egyptians DNA is Less Sub Saharan than modern Egyptian DNA.
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[QUOTE]Originally posted by Doug M: [QB] [QUOTE]Originally posted by Tukuler: [qb] Why would they need African DNA to find EEF when EEF data is direct from dead folks bones? You keep ignoring this but EEF is not mythical. EEF is Stuttgart, the Tyrolean Iceman, and a southern Swedish farmer. The African component of Beduin B was used to determine the amount of Near Eastern farmer in the Stuttgart and it applies to all EEF and Mediterranean Europeans. [QUOTE]Originally posted by Doug M. In fact EEF is a "mythical" population but you didn't see them using African DNA to find it. They filtered out most African DNA and focused exclusively on Europe.[/QUOTE][IMG]https://s9.postimg.cc/57nx7dhkf/EEF4_Dummies1.png[/IMG] [IMG]https://s9.postimg.cc/ocr6gw3vj/EEF4_Dummies2.png[/IMG] [IMG]https://s9.postimg.cc/6yg50a8pb/EEF4_Dummies3.png[/IMG] [/qb][/QUOTE]The point of EEF was to identify the geographic origin of some DNA components in ancient Europe. It wasn't simply based on just raw ancient DNA. In order to uncover the ancestry of the DNA in ancient Europe associated with the Neolithic they ran a very complex set of filters to remove any modern contamination from populations like some Africans. [QUOTE] For each allele-matching analysis (A) and (B), we performed the following four mixture model analyses (though here “modern” groups exclude ALT,DEN , who are not used as surrogates for reasons described above): (I) “all moderns” – form each ancient and modern genome using all modern groups as surrogates (II) “all moderns + ancients” – form each ancient and modern genome using all modern+ancient groups as surrogates (III) “ancients + Yoruba” – form each ancient and modern genome using all other ancient genomes, plus the modern Yoruba, as surrogates (IV) “ancients (excluding BR ) + Yoruba” – form each ancient and modern group using the modern Yoruba and all other ancient genomes except BR2 as surrogates In each case, a group cannot use itself as a surrogate or else it would match itself exactly. Under allele-matching analysis (B), the same groups we disallow as donors are also disallowed as surrogates for mixture model analyses (I) and (II). For analyses (III) and (IV), we were interested in how modern and ancient groups relate ancestrally to different sets of ancient genomes. We also included the Yoruba as a surrogate in (III) and (IV), since our ancient samples contain no proxies for sub- Saharan Africa and e.g. several West Eurasian groups we use here have been shown to have recent African admixture [121]. r analyses (I) and (II), if the final inferrence included more than ten surrogate groups with β r s > 0, we did an altered procedure to mitigate effects of over-fitting. In particular we sequentially included surrogates that improved the total variation distance (TVD) measure (e.g. used in [148]) between f r, the inferred allele matching profile of recipient group r based on the inferred best fit to equation(5), and f r, the actual allele matching profile of recipient group r. To do so, we measure TVD comparing two profiles x,y using [/QUOTE] http://www.pnas.org/content/pnas/suppl/2016/06/02/1523951113.DCSupplemental/pnas.1523951113.sapp.pdf http://www.pnas.org/content/113/25/6886 Meaning the purpose of the paper on EEF was to understand where certain Genomes originated that were found in the DNA of the early Neolithic in Europe [b]focusing exclusively on other populations in Eurasia[/b]. It isn't a single targeted population. It is a model of mixture based on inference and filtering to define the origin of specific [b]Eurasian[/b] genomes. [b]And they used that filtering to remove recent African mixture from their analysis of the ancient populations.[/b] Literally Early European farmers are all populations of Europeans who practiced farming at an early date. It is not a single population, as opposed to multiple different populations across Europe. But the EEF population they are referring to [b]GENETICALLY[/b] is the percentage of Anatolian ancestry found among the various European groups at the earliest stages of farming in Europe. It is not a "single population" with a single DNA profile as opposed to a model of mixture between multiple DNA profiles which was filtered to determine how much of that profile came from Anatolia and other communities where farming originated. [QUOTE][b]To better characterize this inferred migration, we modeled ancient and modern genomes as mixtures of DNA from other ancient and/or modern genomes, a flexible approach that characterizes the amount of ancestry sharing among multiple groups simultaneously[/b][/QUOTE]SO my point was why don't they do the same thing to filter out recent Eurasian mixture from ancient African DNA models? [/QB][/QUOTE]
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