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Thread: Global25 automated nMonte for South/Central Asian members

  1. #5021
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    Quote Originally Posted by bmoney View Post
    Reza, inland Maharashtra is very genetically and culturally distinct from coastal Marathi/Konkan upper castes

    My bet is the Vidharba region would score like Arlus/Chattisgarh non-upper caste

    Having said that some Marathas in G25 do have a lot of this inland tribal ancestry
    Yup, my people. Were tribal shifted

  2. #5022
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    Poi, and others is there any interest in doing a Malta Boy run for all South Asians? What Steppe groups should be added to isolate ANE? Could 1 run work for everyone? This ANE question a while ago seems to indicate something archaic. Are there any corelations between Steppe levels and ANE? Are Europeans or Middle Easterns or Native Americans showing considerable ANE?

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  4. #5023
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    Quote Originally Posted by agent_lime View Post
    Poi, and others is there any interest in doing a Malta Boy run for all South Asians? What Steppe groups should be added to isolate ANE? Could 1 run work for everyone? This ANE question a while ago seems to indicate something archaic. Are there any corelations between Steppe levels and ANE? Are Europeans or Middle Easterns or Native Americans showing considerable ANE?
    You cannot isolate ANE unless you use very diverged groups which means large fits, ANE is ancestral to all Steppe populations , as well as Iran_N, then you have groups which were like 80-90% ANE like way after

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  6. #5024
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    Quote Originally Posted by pegasus View Post
    You cannot isolate ANE unless you use very diverged groups which means large fits, ANE is ancestral to all Steppe populations , as well as Iran_N, then you have groups which were like 80-90% ANE like way after
    They improve fits for a few people. Could adding it in improve fits for others too?

  7. #5025
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    "sample": "North_Kannadi:Average",
    "fit": 4.6384,
    "Simulated_AASI_South_by_DMXX": 73.33,
    "IRN_Ganj_Dareh_N": 16.67,
    "RUS_Sintashta_MLBA": 10,

    "sample": "Paniya:Average",
    "fit": 2.4088,
    "Simulated_AASI_South_by_DMXX": 88.33,
    "IRN_Ganj_Dareh_N": 8.33,
    "RUS_Sintashta_MLBA": 3.33,

    "sample": "North_Kannadi:Average",
    "fit": 4.4579,
    "Simulated_AASI_South_by_DMXX": 70,
    "IRN_Ganj_Dareh_N": 16.67,
    "RUS_MA1": 9.17,
    "RUS_Sintashta_MLBA": 4.17,

    "sample": "Paniya:Average",
    "fit": 2.1303,
    "Simulated_AASI_South_by_DMXX": 86.67,
    "IRN_Ganj_Dareh_N": 7.5,
    "RUS_MA1": 5,
    "RUS_Sintashta_MLBA": 0.83,

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  9. #5026
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    Quote Originally Posted by agent_lime View Post
    They improve fits for a few people. Could adding it in improve fits for others too?
    In SI tribals yes but otherwise no but you can play around with it. Its just good for showing very divergent paleolithic/neolithic ancestries for the most part.


    "sample": "Irula:Average",
    "fit": 6.089,
    "Simulated_AASI": 70,
    "RUS_MA1": 15,
    "Anatolia_Barcin_N": 10,
    "Levant_Natufian": 4.17,
    "Yoruba": 0.83,
    "NPL_Chokhopani_2700BP": 0,


    A Siberian shifted Ror

    sample": "Ror:Ror_56",
    "fit": 11.5735,
    "RUS_MA1": 52.5,
    "Anatolia_Barcin_N": 29.17,
    "Simulated_AASI": 18.33,
    "Levant_Natufian": 0,
    "NPL_Chokhopani_2700BP": 0,

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  11. #5027
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    Quote Originally Posted by agent_lime View Post
    Poi, and others is there any interest in doing a Malta Boy run for all South Asians? What Steppe groups should be added to isolate ANE? Could 1 run work for everyone? This ANE question a while ago seems to indicate something archaic. Are there any corelations between Steppe levels and ANE? Are Europeans or Middle Easterns or Native Americans showing considerable ANE?
    You can compare shared drift with the Malta boy using formal f3 stats: f3 (YRI; MA1, X) or f3(Mbuti; MA1, X)

    There are correlations between steppe and ANE since steppe formed from an admixture of EHG and a population related to Iranian farmers, and both EHG and the admixing population had significant ANE - so much so that after admixture the centroid of EHG vs. Yamna barely changed with respect to ANE.


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  13. #5028
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    Quote Originally Posted by parasar View Post
    You can compare shared drift with the Malta boy using formal f3 stats: f3 (YRI; MA1, X) or f3(Mbuti; MA1, X)

    There are correlations between steppe and ANE since steppe formed from an admixture of EHG and a population related to Iranian farmers, and both EHG and the admixing population had significant ANE - so much so that after admixture the centroid of EHG vs. Yamna barely changed with respect to ANE.

    I thought k14 would be very close to WHG in PCA plot. Is WHG not derived from k14?

  14. #5029
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    Quote Originally Posted by pnb123 View Post
    I thought k14 would be very close to WHG in PCA plot. Is WHG not derived from k14?
    K14 has less of the WHG yellow component than the WHG pops like La Brana Loschbour etc...

    K14 shows the strongest affinities with ancient (West) Eurasian samples such as Malta (MA-1), La Brana, Loschbour, Motala and Ajv58 across all measures. La Brana and Loschbour are especially close to K14. Among modern Europeans, f3 and D-statistic point to northern Europeans (especially, Lithuanians) as the closest living proxies for K14. However, this shared ancestry is not as strong as, for instance, the affinity between MA-1 and modern Amerindians suggesting that significant populational changes have occurred in Europe since the K14 times. In a PCA, K14 falls outside of the contemporary European genetic variation by showing an “eastward” pull and clustering with contemporary South and Central Asian populations (mtDNA hg U2, too, is presently found at elevated frequencies in South Asia). According to a clustering analysis (Fig. 1B, see on the left), K14 “plays” in all 3 autosomal admixture Kostenki-ADMIXTUREcomponents – “West Eurasian Hunter-Gatherer” (WHG) or “Mesolithic Hunter-Gatherer” (MHG), “Ancient North Eurasian” (ANE) and “Basal European” (BEu) that Lazaridis et al. (2014) detected in contemporary and ancient West Eurasians.

    There is an intriguing asymmetry in the distribution of ancestry components between K14 and MA-1. Both K14 and MA-1 have South Asian and Oceanian components. K14 has an East Asian component (BLUE) that “ate” into MA-1’s stronger Central Asian (LIGHT GREEN) component. Both K14 and MA-1 stand out against later samples as having a higher diversity of high frequency ancestry components. It’s clear that over time the “Western Hunter-Gatherer” component (YELLOW) came to dominate what would become Mesolithic Europeans in post-LGM times and then its dominance got minimized by the rising prominence of the BEu component (BROWN). The combination of the two resulted in the demise of the most if not all most ancient high-frequency components such as Amerindian and Oceanian. But now, while both specimens show “Amerindian admixture” (DARKER GREEN in Fig. 1B on the left), MA-1 has a much higher concentration of it. This is consistent with the geographic placement of the two specimens: MA-1 is in South Siberia, while K14 is in central Russia. Correspondingly, K14 contains a Middle Eastern component (a.k.a. “BEu”) (BROWN) and, importantly, an African component (RED) comes along with it. So, if MA-1 skews Amerindian, K14 skews Middle Eastern and African.
    from http://anthropogenesis.kinshipstudie...ica-to-africa/
    Y: H-M69 -> H-M82 -> SK1225 -> H-Z5888 -> H-Z5890 -> H-CTS8144 [CTS8144/PF1741/M5498] -> Z34531 (H1a1a4b3b1a8~)
    found 2875 BCE -> Jiroft/IVC Periphery 11459 Shahr-i-Sokte BA2
    mtDNA:U2a1a

    G25 Ancients Dist 0.79 IND_Roopkund_A 51.05 IRN_Shahr_I_Sokhta_BA2 46.64 MAR_Iberomaurusian2.04PAK_Katelai_IA0.19 TKM_Gonur2_BA 0.08

    Lactose Persistence rs3213871 rs4988243 rs4988183 rs3769005 rs2236783
    found -> DA125, Kangju

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  16. #5030
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    It looks like even Goyet has South Asian shift:
    # Population Percent
    1 NE-Euro 33.88
    2 Mediterranean 22.81
    3 S-Indian 17.80
    4 Papuan 5.60
    5 SE-Asian 5.43
    6 SW-Asian 4.33
    7 Siberian 2.56
    8 San 2.13
    9 American 1.92
    10 Baloch 1.46
    11 Beringian 1.40

    Later hunter gatherers like Villabruna do not show South Asian admix. I guess minor SE Asian is just noise (<5%).
    # Population Percent
    1 NE-Euro 75.78
    2 Mediterranean 21.54
    3 SE-Asian 1.93

    So genes must have become pretty homogenized during LGM. And then during Neolithic Era Basal Rich folks migration into Europe. Like this Barcin sample.

    # Population Percent
    1 Mediterranean 45.70
    2 Caucasian 36.43
    3 SW-Asian 16.36
    4 NE-Euro 1.35

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