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Thread: Global25 automated nMonte for South/Central Asian members

  1. #10831
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    Sikh Empire India Punjab Nishan Sahib
    Quote Originally Posted by pegasus View Post
    Using singleton samples are not meant for qpAdm , I mean you will likely get a false positive because they are usually not enough SNPs. G25 is the best for individuals
    Is this true even if one has their whole genome sequenced?

  2. #10832
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    Quote Originally Posted by Bobthebuilder View Post
    Attachment 53558

    Adding a custom PCA here for a bunch of samples I've collected related to Jammu and Kashmir. Hopefully you guys find this interesting/useful. I've added some near by samples from geno to help plot the space. like the official Kashmir_Pakistan and Kashmir_Pakistan_o samples and some others.
    Captures good diversity of the West Himalaya as a whole. Difficult to differentiate any of them; they all look similar to each other on a group basis.

    Anyways, do you have any samples/coordinates that could be added (unscaled required) to David's spreadsheet? He adds private real (not simulated) coordinates as well if permitted to do so; conditions are that the coords must be of a person representing only 1 ethnicity, caste or tribe (unadmixed/"pure").

    Anyone else who wants to add their personal coordinates to David's spreadsheet as well can send their coords to me; both scaled and unscaled coordinates are required.
    Last edited by Kaazi; 01-24-2023 at 04:37 PM.

  3. #10833
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    United States of America Pakistan Jammu and Kashmir
    Quote Originally Posted by Bobthebuilder View Post
    Attachment 53558

    Adding a custom PCA here for a bunch of samples I've collected related to Jammu and Kashmir. Hopefully you guys find this interesting/useful. I've added some near by samples from geno to help plot the space. like the official Kashmir_Pakistan and Kashmir_Pakistan_o samples and some others.
    can you also post where these individuals are from specifically, what districts of JnK?

  4. #10834
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    India
    Bengali Muslim with supposed West Asian ancestry.
    https://anthrogenica.com/showthread....l=1#post907102

    Can someone check the veracity with better models?

    scaled,0.044391,-0.1046,-0.143683,0.097869,-0.057857,0.060798,-0.00047,0.014769,0.04704,0.017312,-0.008769,3e-04,0.015312,-0.000688,-0.006515,-0.009281,-0.001825,-0.002787,-0.001006,-0.001126,-0.005116,0.012489,-0.000739,0.003615,0.001317

  5. #10835
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    India
    .....
    Last edited by surasena; 01-24-2023 at 07:01 PM.

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  7. #10836
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    Quote Originally Posted by Kaazi View Post
    Captures good diversity of the West Himalaya as a whole. Difficult to differentiate any of them; they all look similar to each other on a group basis.

    Anyways, do you have any samples/coordinates that could be added (unscaled required) to David's spreadsheet? He adds private real (not simulated) coordinates as well if permitted to do so; conditions are that the coords must be of a person representing only 1 ethnicity, caste or tribe (unadmixed/"pure").

    Anyone else who wants to add their personal coordinates to David's spreadsheet as well can send their coords to me; both scaled and unscaled coordinates are required.
    most of them are Saidu Sharif like population. I wouldn't be surprised if ancient buddhist individuals from Taxila and Ambaran, Akhnoor were similar to them.
    bddhist_devotee_original.jpg
    Sample Fit Saidu Sharif H Barikot H
    dogra (Kapisa) 2.14 100 0
    Salaria Rajput-HW-sim (Kapisa) 0.88 100 0
    kayani scaled (KIANI) 2.44 100 0
    Khakha Rajput Kashmir AVG (raasnokh) 1.31 99 1
    Jarral Rajput Kashmir AVG (raasnokh) 1.85 99 1
    Average (Potohar Brahmin) 1.34 97 3
    Average (Kashmiri Pakistan) 0.94 97 3
    Average (Kashmiri Pandit) 1.63 95 5
    Janjua-R2a-HW-sim (Kapisa) 2.22 95 5
    Jammu Rajput-HW-sim (Kapisa) 1.78 95 5
    Average (Potohar Rajput) 1.84 90 10
    Awan Average (Protein) 1.49 81 19
    Kapisa Mom scaled (Kapisa) 2.30 78 22
    Kapisa scaled (Kapisa) 1.82 72 28
    Janjua Jehlum-HW-sim (Kapisa) 0.90 58 42
    Average (Kohistani) 0.81 52 48
    Chakwal-Janjua-HW-sim (raasnokh) 1.71 51 49
    Kapisa dad scaled (Kapisa) 2.00 50 50
    Kapisa Sister (Kapisa) 2.97 50 50

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  9. #10837
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    Quote Originally Posted by surasena View Post
    Bengali Muslim with supposed West Asian ancestry.
    https://anthrogenica.com/showthread....l=1#post907102

    Can someone check the veracity with better models?
    Target: scaled
    Distance: 3.5084% / 0.03508357
    49.0 AASI
    24.2 Iran_N
    22.6 Yamnaya
    4.2 CHN_Boshan_N


    Target: Bengali_Bangladesh
    Distance: 2.8966% / 0.02896600
    49.8 AASI
    23.2 Iran_N
    21.0 Yamnaya
    6.0 CHN_Boshan_N

    almost identical, he has no west asian
    Distance: 1.7554% | ADC: 0.5x RC
    44.6 Algerian_Mazuna
    28.0 Tunisian_Tunis
    15.8 Algerian_Msila
    6.8 Samaritan
    4.8 Tunisian_Bizerte

  10. #10838
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    Muslim Andalusi Sharqi Iberia_Southeast_c.10-16CE:I12514 0.03148322

    Islamic Conference European Union African Union Arab League
    Quote Originally Posted by Abceff View Post
    Target: scaled
    Distance: 3.5084% / 0.03508357
    49.0 AASI
    24.2 Iran_N
    22.6 Yamnaya
    4.2 CHN_Boshan_N


    Target: Bengali_Bangladesh
    Distance: 2.8966% / 0.02896600
    49.8 AASI
    23.2 Iran_N
    21.0 Yamnaya
    6.0 CHN_Boshan_N

    almost identical, he has no west asian
    Iran_N is West Asian
    23andMe, averages
     
    Distance: 0.0163% / 0.01625846 | R6P
    35.7 French_Chalosse
    27.0 BelgianA
    14.2 Saharawi
    10.7 Sicilian_East
    9.4 Polish_Kashubian
    3.0 Mozabite
    Distance to closest:
    0.02643477 Spanish_CanariasLa_Palma



    Ancestry
     
    Distance: 0.0163% / 0.01634379 | R6P
    32.4 BelgianA
    28.8 French_Chalosse
    17.2 Berber_MAR_ERR
    10.0 Sicilian_East
    8.2 Polish_Kashubian
    3.4 Sardinian
    Distance to closest:
    0.02788822 Spanish_CanariasTenerife

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  12. #10839
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    Quote Originally Posted by Kapisa View Post
    can you also post where these individuals are from specifically, what districts of JnK?

    I gotta get better at labeling. The original I had labeled really well but then on the PCA couldn't make out, so I shorten.

    JnK AVG.png

    Mughals = Mirpur/Punch
    Sudhans = Mirpur/Punch
    Khakhas = Punch
    Narmas = Punch
    Jarrals = Rajouri
    Jammu Rajputs = Jammu
    Pahari Dar = Pahari named Dar
    Kashmiri Pathan = Valley
    Koshur me = Valley
    Kashmiri muslim avg = Valley
    Kashmiri Pandit = Valley
    Kashmiri Sardar = Valley
    AF Sri = Valley

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  14. #10840
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    https://www.reddit.com/r/SouthAsianA...t=share_button

    Balija Naidu sample scores like Velamas Average and is slightly off the IVCp cline (4025 like, SISBA3) IMO? 4% less IranN than SISBA3.

    Code:
    Balija_Naidu_scaled,0.045529,-0.084289,-0.168196,0.106591,-0.084323,0.062193,-0.00188,0.016615,0.044177,0.026242,-0.00747,-0.002398,-0.004162,0.00234,-0.007736,0.004375,0.004042,0.004561,-0.002388,0.002626,0.016845,0.002844,0.002218,0.003976,-0.00455
    Balija_Naidu_unscaled,0.004,-0.0083,-0.0446,0.033,-0.0274,0.0223,-0.0008,0.0072,0.0216,0.0144,-0.0046,-0.0016,-0.0028,0.0017,-0.0057,0.0033,0.0031,0.0036,-0.0019,0.0021,0.0135,0.0023,0.0018,0.0033,-0.0038
    Her harappaworld scores
    https://anthrogenica.com/showthread....l=1#post846868

    Sample Fit AASI Iran N EHG WSHG Amerindian N Africa N Iberomaurusian EN WHG Sino-Tibetan MN ANF Levant N
    Komati AVG(8) (kapu2329) 1.99 50.6 40.2 7.6 1.6 0 0 0 0 0 0 0
    Telugu-IVCp (Kaazi) 2.08 50.6 41.4 5.6 2.4 0 0 0 0 0 0 0
    HG04025.SG (Telugu GBR) 2.23 49.4 42.6 4 2.8 1 0 0.2 0 0 0 0
    Balija Naidu scaled (Kaazi) 2.60 44.8 41.4 0 7.8 0 0 0 3.2 1.2 1 0.6
    Average (Velamas) 1.50 44.4 42 7.6 2.8 0 0 0 0 0 3.2 0
    S8728.E1.L1 (Shahr I Sokhta BA3) 2.62 44.2 45.4 2.6 6.6 0.6 0.6 0 0 0 0 0
    IRN Shahr I Sokhta BA I8728 new (Kaazi) 2.44 43.6 45 0 7.6 0.8 0.6 0 2.4 0 0 0
    Kush AGUser (Reddy) 2.18 42.2 44 6.6 0 1.8 0 0 2.2 0 3.2 0
    tipirneni AGUser (Andhra Pradesh Kamma) 1.93 41.4 43.8 0 7 0 0 0.4 3.8 1 2.6 0


    The sample (4025 & similar Telugu GBR) which we were taking as a IVCp base for lower IranN South Asians appear breakdown-wise closer to the Telugu Komati people average.


    Quote Originally Posted by Bobthebuilder View Post
    I gotta get better at labeling. The original I had labeled really well but then on the PCA couldn't make out, so I shorten.

    JnK AVG.png

    Mughals = Mirpur/Punch
    Sudhans = Mirpur/Punch
    Khakhas = Punch
    Narmas = Punch
    Jarrals = Rajouri
    Jammu Rajputs = Jammu
    Pahari Dar = Pahari named Dar
    Kashmiri Pathan = Valley
    Koshur me = Valley
    Kashmiri muslim avg = Valley
    Kashmiri Pandit = Valley
    Kashmiri Sardar = Valley
    AF Sri = Valley
    Do you have this Jammu Rajput coordinates? What's his clan?
    Last edited by Kaazi; 01-26-2023 at 08:25 AM.

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