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Right populations to use for qpadm

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Right populations to use for qpadm
Genetics189291 Offline
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#1
05-08-2024, 07:59 PM
Does anyone have a list of good right populations to use for north west Africans, also I need samples that can differentiate Arab and Levantine ancestry thanks
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Kale Offline
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#2
05-08-2024, 08:06 PM
What time period are you looking at for sources/left pops?
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Genetics189291 Offline
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#3
05-08-2024, 08:19 PM
(05-08-2024, 08:06 PM)Kale Wrote: What time period are you looking at for sources/left pops?

A mixture of moderns, Iron Age and medieval thanks
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Kale Offline
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#4
05-08-2024, 08:59 PM
First in the list, your 'base' population, SouthAfrica_2000BP - I9028.SG, bab001.SG, I9133.SG, baa001.SG
Then...
Barcin_N.SG
Iran_Wezmeh_N.SG
CHG.SG
OUB002
SKH001
The copper age .SG samples from ElPortalon
The .SG versions of Afanasievo samples from site KarasukIII
Italy_GrottaContinenza_HG.SG
Whatever sort of .SG EHG samples you'd like to put together
Botai.SG
Andaman_100BP.SG
DevilsCave_N
Peru_RioUncallane_1600/1800BP

Generally it's bad practice to mix and match 1240k and. SG in BOTH the left and right, but there are no .SG Levant or Mesopotamian samples at the moment, so you may need to add some 1240k ones
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Genetics189291 Offline
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#5
10-27-2024, 07:58 PM
(05-08-2024, 08:59 PM)Kale Wrote: First in the list, your 'base' population, SouthAfrica_2000BP - I9028.SG, bab001.SG, I9133.SG, baa001.SG
Then...
Barcin_N.SG
Iran_Wezmeh_N.SG
CHG.SG
OUB002
SKH001
The copper age .SG samples from ElPortalon
The .SG versions of Afanasievo samples from site KarasukIII
Italy_GrottaContinenza_HG.SG
Whatever sort of .SG EHG samples you'd like to put together
Botai.SG
Andaman_100BP.SG
DevilsCave_N
Peru_RioUncallane_1600/1800BP

Generally it's bad practice to mix and match 1240k and. SG in BOTH the left and right, but there are no .SG Levant or Mesopotamian samples at the moment, so you may need to add some 1240k ones

Thanks this worked great I just put my base as mbuti.dg because I’m using admixtools1 results look a lot better I used natufian to represent the levant
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Jalisciense Offline
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Ethnicity: Hispanic mestizo
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Y-DNA (P): E1b-L19 -> M183 -> PF2546
Y-DNA (M): E1b-L19 -> M183 -> PF2546
mtDNA (M): B2g1
mtDNA (P): C4
Country: Mexico
#6
10-27-2024, 09:20 PM
(05-08-2024, 08:59 PM)Kale Wrote: First in the list, your 'base' population, SouthAfrica_2000BP - I9028.SG, bab001.SG, I9133.SG, baa001.SG
Then...
Barcin_N.SG
Iran_Wezmeh_N.SG
CHG.SG
OUB002
SKH001
The copper age .SG samples from ElPortalon
The .SG versions of Afanasievo samples from site KarasukIII
Italy_GrottaContinenza_HG.SG
Whatever sort of .SG EHG samples you'd like to put together
Botai.SG
Andaman_100BP.SG
DevilsCave_N
Peru_RioUncallane_1600/1800BP

Generally it's bad practice to mix and match 1240k and. SG in BOTH the left and right, but there are no .SG Levant or Mesopotamian samples at the moment, so you may need to add some 1240k ones

Why are those necessary? 

Botai.SG
Andaman_100BP.SG
DevilsCave_N
Peru_RioUncallane_1600/1800BP

I'm new using qpAdm, so it's a genuine question xd
Maternal grandpa's mtDNA: L1b1a

23andMe: 55.5% European, 33.7% Indigenous American, 4.2% WANA, 3.4% SSA & 3.2% Unassigned
AncestryDNA: 55% Europe/Sephardic Jew, 38% Indigenous Americas-Mexico, 4% MENA & 3% SSA
FamilyTreeDNA: 56.9% Europe, 33% Americas, 8.2% MENA, <2% Horn of Africa & <1% Eastern India
Living DNA: 63.3% West Iberia, 34.4% Native Americas & 2.3% Yorubaland
MyHeritage DNA: 77.5% Mexico, 21.4% Iberian & 1.1% Moroccan

qpAdm
taildiff: 0.959427
60.1% Iberian ± 1.9%, 34% Native American ± 1.9% & 5.8% African ± 0.9%
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Kale Offline
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#7
10-28-2024, 05:03 AM
Kind of covering your basics.
Oceanian / Southern-ENA / whatever you want to call it is a major phylogenic branch: Andaman, Papuan, Australian, Onge, etc. works good to represent that.
East Asian branch = DevilsCave is probably our best high quality .SG option.
Native Americans and Botai sort of team up to flesh out ANE. MA1 is decent quality, but for stability you want the best quality you can get.

They might not always be necessary, but in more experimental models (especially involving Africa like the OP intends) it's good to have them just to help constrain deeper ancestry.
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Jalisciense Offline
Senior Member
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Posts: 369
Threads: 24
Joined: Oct 2023
Gender: Male
Ethnicity: Hispanic mestizo
Nationality: Mexican
Y-DNA (P): E1b-L19 -> M183 -> PF2546
Y-DNA (M): E1b-L19 -> M183 -> PF2546
mtDNA (M): B2g1
mtDNA (P): C4
Country: Mexico
#8
10-28-2024, 08:42 AM
(10-28-2024, 05:03 AM)Kale Wrote: Kind of covering your basics.
Oceanian / Southern-ENA / whatever you want to call it is a major phylogenic branch: Andaman, Papuan, Australian, Onge, etc. works good to represent that.
East Asian branch = DevilsCave is probably our best high quality .SG option.
Native Americans and Botai sort of team up to flesh out ANE. MA1 is decent quality, but for stability you want the best quality you can get.

They might not always be necessary, but in more experimental models (especially involving Africa like the OP intends) it's good to have them just to help constrain deeper ancestry.

So if I want to make a model for Iberians in an Iron Age/Late Antiquity model, which right/outgroup populations would be the best?

The Left are any Iberian (Target) Iberian IA, Italy Imperial/Italy_LA (No outliers) and CanaryIslands Guanche.
Maternal grandpa's mtDNA: L1b1a

23andMe: 55.5% European, 33.7% Indigenous American, 4.2% WANA, 3.4% SSA & 3.2% Unassigned
AncestryDNA: 55% Europe/Sephardic Jew, 38% Indigenous Americas-Mexico, 4% MENA & 3% SSA
FamilyTreeDNA: 56.9% Europe, 33% Americas, 8.2% MENA, <2% Horn of Africa & <1% Eastern India
Living DNA: 63.3% West Iberia, 34.4% Native Americas & 2.3% Yorubaland
MyHeritage DNA: 77.5% Mexico, 21.4% Iberian & 1.1% Moroccan

qpAdm
taildiff: 0.959427
60.1% Iberian ± 1.9%, 34% Native American ± 1.9% & 5.8% African ± 0.9%
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Kale Offline
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#9
10-28-2024, 02:19 PM
Same setup would be fine, maybe throw in Chan_meso/LaBrana(.SG) if you felt like it.
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