Modern West Eurasia PCA G25 scaled individuals

[SouthDutch7991]

Here I've run both the PCA as it is, and again projected over eight ancient West Eurasian averages. The projected PCA compresses northern and eastern europe but seems to show west asia better due to the sample size bias.

https://imgur.com/wOazC4D.png

https://imgur.com/cAXUn59.png

Coordinates I used:


https://drive.google.com/file/d/113h7gvZH5AjpTbYJpjWjltOKKbPSB7qk/view?usp=sharing

Also semi-organized
https://drive.google.com/file/d/1FtlrbEHnXFUQP5CwOyh-vvW2l4DYgTqa/view?usp=sharing

[Beowulf]

my results with the coordinates that you used:


Target: ivorixG25
Distance: 2.2949% / 0.02294918 | ADC: 0.25x RC
59.6 Spanish_Castilla_Y_Leon
14.6 Spanish_Asturias
11.2 Orcadian
6.4 Polish_Kashubian
5.2 SaudiB
2.2 EmiratiA
0.8 Brahmin_Uttar_Pradesh_o

[alnortedelsur]

Would you post the coordinates again?

[SouthDutch7991]

Would you post the coordinates again?

I re-posted the coordinates in my OP. But there's no point using them as a model, it's just the individuals from the latest modern G25 individuals scaled sheets without roma or jewish samples.

Here's the ancient coordinates I used.

https://drive.google.com/file/d/1DuAXBtszIqWS0n0MevR-PLM6z-EfZsgL/view?usp=sharing

I suggest using them as a PCA with this tool
https://vahaduo.github.io/custompca/

[alnortedelsur]

My results without adding anything extra:

Target: Alnortedelsur_scaled
Distance: 7.2606% / 0.07260595
35.6 Yamnaya_RUS_Samara
31.8 TUR_Barcin_N
21.2 Levant_PPNB
8.2 Western_Hunter_Gatherer
3.2 IRN_Ganj_Dareh_N

Target: Alnortedelsur_scaled
Distance: 7.2918% / 0.07291800 | ADC: 0.25x RC
38.8 Yamnaya_RUS_Samara
30.2 TUR_Barcin_N
23.8 Levant_PPNB
7.2 Western_Hunter_Gatherer

Target: Alnortedelsur_scaled
Distance: 7.6081% / 0.07608072 | ADC: 0.5x RC
57.8 TUR_Tepecik_Ciftlik_N
33.2 Yamnaya_RUS_Samara
9.0 Western_Hunter_Gatherer

Distance to: Alnortedelsur_scaled
0.15327027 TUR_Tepecik_Ciftlik_N
0.17180181 TUR_Barcin_N
0.17272774 Kura-Araxes_ARM_Kaps
0.19516239 Levant_PPNB
0.20448283 Yamnaya_RUS_Samara
0.26258126 GEO_CHG
0.29688335 IRN_Ganj_Dareh_N
0.37630645 Western_Hunter_Gatherer

My results after adding Amerindian and SSA references:

Target: Alnortedelsur_scaled
Distance: 4.2313% / 0.04231324
30.4 TUR_Barcin_N
25.4 Yamnaya_RUS_Samara
23.2 TUR_Tepecik_Ciftlik_N
8.0 Western_Hunter_Gatherer
7.4 Amerindian_North
5.6 SSA

Distance to: Alnortedelsur_scaled
0.15327027 TUR_Tepecik_Ciftlik_N
0.17180181 TUR_Barcin_N
0.17272774 Kura-Araxes_ARM_Kaps
0.19516239 Levant_PPNB
0.20448283 Yamnaya_RUS_Samara
0.26258126 GEO_CHG
0.29688335 IRN_Ganj_Dareh_N
0.37630645 Western_Hunter_Gatherer
0.55043046 Amerindian_North
0.71075688 SSA:West_African_Niger-Congo:Igbo

[Lemminkäinen]

It looks like Finnish reference samples are often off in G25 tests


Target: MauriJussi1m_scaled
Distance: 0.3381% / 0.00338096
21.4 Irish
21.4 Finnish
20.0 Lithuanian
16.0 Russian
5.0 Karelian
4.0 Dutch
4.0 Norwegian
3.8 Estonian
2.6 Swedish
1.8 Polish

[alnortedelsur]

PCA Plot:

https://i1.imageban.ru/out/2023/01/24/26335670bf7fa18c1fc8211749faaec0.png

[noricum]

Target: G25noricum_scaled
Distance: 0.5902% / 0.00590173
21.8 German
18.2 Lithuanian
16.4 Dutch
10.6 Belarusian
9.2 Romanian
7.8 Sardinian
6.6 Macedonian
5.0 Ukrainian
2.2 Croatian
1.2 Norwegian
1.0 Polish


Target: G25noricum_scaled
Distance: 0.8014% / 0.00801374 | ADC: 0.25x RC
39.6 German
22.8 Slovenian
11.6 Dutch
10.2 Hungarian
8.0 Macedonian
7.8 Croatian


Distance to: G25noricum_scaled
0.01864109 German:Erlangen:GSM1658615
0.02094246 German:Erlangen:GSM1658657
0.02103648 Slovenian:Slovenian147
0.02389756 German:Erlangen:GSM1658632
0.02429114 German:Erlangen:GSM1658606
0.02440676 German:Erlangen:GSM1658659
0.02469864 Hungarian:HungarianC5
0.02536444 German:East:German:East7
0.02620889 German:Erlangen:GSM1658622
0.02665554 German:Erlangen:GSM1658627
0.02689085 German:Erlangen:GSM1658609
0.02692418 German:Erlangen:GSM1658654
0.02725267 German:East:German:East8
0.02729245 German:Erlangen:GSM1658623
0.02731562 Croatian:Croatia_Cro142
0.02743637 Hungarian:NA15203
0.02782600 Moldovan:44618757801C02
0.02829293 German:East:German:East1
0.02831744 German:Erlangen:GSM1658598
0.02843047 Ukrainian:Zakarpattia:EG600036
0.02863516 French:Alsace:A_31
0.02864662 German:Erlangen:GSM1658633
0.02867109 Croatian:Croatia_Cro302
0.02918210 Ukrainian:Zakarpattia:EG600035
0.02926191 German:German17

[alnortedelsur]

With modern populations and no extra coordinates added:

Target: Alnortedelsur_scaled
Distance: 3.4936% / 0.03493573
62.4 Spanish
13.8 Turkish
7.0 Iraqi
6.8 Basque
5.8 Karelian
4.2 Saudi



Distance to: Alnortedelsur_scaled
0.05080250 Spanish:Canarias:CAN2
0.05273855 Spanish:Canarias:CAN1220
0.05540964 Spanish:Canarias:CAN3
0.05622077 Spanish:Canarias:CAN956
0.05830256 Spanish:Canarias:CAN12
0.05966556 Spanish:Galicia:GAL21
0.06006685 Spanish:Canarias:HG01694
0.06116270 Spanish:Canarias:HG01695
0.06143568 Spanish:Canarias:CAN13
0.06163598 Spanish:Canarias:CAN11
0.06200574 Spanish:Galicia:HG01704
0.06216430 Spanish:Galicia:GAL16
0.06243915 Spanish:Andalucia:AND80
0.06265474 Spanish:Extremadura:HG01527
0.06292098 Portuguese:Portugal6
0.06319548 Spanish:Murcia:HG01618
0.06409989 Spanish:Canarias:CAN4
0.06418756 Spanish:Canarias:CAN18
0.06431117 Portuguese:EBC_Portugal9
0.06431338 Spanish:Canarias:CAN9
0.06446334 Portuguese:EBC_Portugal1
0.06449060 Portuguese:EBC_Portugal12
0.06481232 Spanish:Galicia:GAL35
0.06508538 Spanish:Eivissa:CAR256
0.06539222 Spanish:Canarias:CAN884
0.06636423 Spanish:Castilla_Y_Leon:HG01500
0.06641764 Spanish:Murcia:HG01697
0.06650388 Portuguese:EBC_Portugal11
0.06658013 Spanish:Canarias:CAN1920
0.06664536 Spanish:Canarias:CAN19
0.06684435 Spanish:Castilla_Y_Leon:HG01501
0.06701986 Spanish:Alacant:MAS064
0.06704271 Spanish:Extremadura:HG01509
0.06716356 Portuguese:Portugal15
0.06744856 Spanish:Alacant:CAR257
0.06754010 Spanish:Canarias:CAN924
0.06770330 Portuguese:EBC_Portugal7
0.06774892 Spanish:Galicia:GAL8
0.06776741 Portuguese:EBC_Portugal13
0.06786178 Portuguese:EBC_Portugal6


With Amerindian and SSA coordinates:

Target: Alnortedelsur_scaled
Distance: 0.9408% / 0.00940841
51.8 Spanish
24.0 Italian
7.6 Amerindian_North
5.2 Irish
4.6 Sardinian
4.0 SSA
2.2 Basque
0.4 Greek
0.2 Georgian

Target: Alnortedelsur_scaled
Distance: 1.2699% / 0.01269911 | ADC: 0.25x RC
75.2 Spanish
11.2 Greek
7.2 Amerindian_North
3.6 Turkish
2.8 SSA

Where I plot (hard to see my name on it, but is close to Italian):

https://i1.imageban.ru/out/2023/01/24/03e7660218864abd72cadd75c183833b.png

[SouthDutch7991]

With modern populations and no extra coordinates added:

Target: Alnortedelsur_scaled
Distance: 3.4936% / 0.03493573
62.4 Spanish
13.8 Turkish
7.0 Iraqi
6.8 Basque
5.8 Karelian
4.2 Saudi



Distance to: Alnortedelsur_scaled
0.05080250 Spanish:Canarias:CAN2
0.05273855 Spanish:Canarias:CAN1220
0.05540964 Spanish:Canarias:CAN3
0.05622077 Spanish:Canarias:CAN956
0.05830256 Spanish:Canarias:CAN12
0.05966556 Spanish:Galicia:GAL21
0.06006685 Spanish:Canarias:HG01694
0.06116270 Spanish:Canarias:HG01695
0.06143568 Spanish:Canarias:CAN13
0.06163598 Spanish:Canarias:CAN11
0.06200574 Spanish:Galicia:HG01704
0.06216430 Spanish:Galicia:GAL16
0.06243915 Spanish:Andalucia:AND80
0.06265474 Spanish:Extremadura:HG01527
0.06292098 Portuguese:Portugal6
0.06319548 Spanish:Murcia:HG01618
0.06409989 Spanish:Canarias:CAN4
0.06418756 Spanish:Canarias:CAN18
0.06431117 Portuguese:EBC_Portugal9
0.06431338 Spanish:Canarias:CAN9
0.06446334 Portuguese:EBC_Portugal1
0.06449060 Portuguese:EBC_Portugal12
0.06481232 Spanish:Galicia:GAL35
0.06508538 Spanish:Eivissa:CAR256
0.06539222 Spanish:Canarias:CAN884
0.06636423 Spanish:Castilla_Y_Leon:HG01500
0.06641764 Spanish:Murcia:HG01697
0.06650388 Portuguese:EBC_Portugal11
0.06658013 Spanish:Canarias:CAN1920
0.06664536 Spanish:Canarias:CAN19
0.06684435 Spanish:Castilla_Y_Leon:HG01501
0.06701986 Spanish:Alacant:MAS064
0.06704271 Spanish:Extremadura:HG01509
0.06716356 Portuguese:Portugal15
0.06744856 Spanish:Alacant:CAR257
0.06754010 Spanish:Canarias:CAN924
0.06770330 Portuguese:EBC_Portugal7
0.06774892 Spanish:Galicia:GAL8
0.06776741 Portuguese:EBC_Portugal13
0.06786178 Portuguese:EBC_Portugal6


With Amerindian and SSA coordinates:

Target: Alnortedelsur_scaled
Distance: 0.9408% / 0.00940841
51.8 Spanish
24.0 Italian
7.6 Amerindian_North
5.2 Irish
4.6 Sardinian
4.0 SSA
2.2 Basque
0.4 Greek
0.2 Georgian

Target: Alnortedelsur_scaled
Distance: 1.2699% / 0.01269911 | ADC: 0.25x RC
75.2 Spanish
11.2 Greek
7.2 Amerindian_North
3.6 Turkish
2.8 SSA

Where I plot (hard to see my name on it, but is close to Italian):

https://i1.imageban.ru/out/2023/01/24/03e7660218864abd72cadd75c183833b.png

Yeah you plot with north-central Italians it seems, makes sense as italians are a mix of latin tribes who were close to modern iberians, and mediterranean islanders who share dna with west asian groups. If I remember correctly, you had some small amount of north african or middle eastern, right?

[alnortedelsur]

Yeah you plot with north-central Italians it seems, makes sense as italians are a mix of latin tribes who were close to modern iberians, and mediterranean islanders who share dna with west asian groups. If I remember correctly, you had some small amount of north african or middle eastern, right?

I score some North Arican or middle eastern in some calculators, yes. Hard to tell, because I have got so many different results in different calculators.

[SouthDutch7991]

I score some North Arican or middle eastern in some calculators, yes. Hard to tell, because I have got so many different results in different calculators.

If you don't mind my asking, which one of your parents has ancestry from Latin America? Or are they both white Venezuelans?

[alnortedelsur]

If you don't mind my asking, which one of your parents has ancestry from Latin America? Or are they both white Venezuelans?

My mom was full Spaniard and my dad from Venezuela (predominately Euro with some Amerindian and SSA).

[SouthDutch7991]

My mom was full Spaniard and my dad from Venezuela (predominately Euro with some Amerindian and SSA).

Neat. If you subtract 50% Spanish from your G25 coords you would have a decent proxy of your dad then. I guess he was probably something like 75% European then.


Alnortedesur_Father_sim,0.025904999999999984,0.078 57,0.034031000000000006,-0.008918,-0.001804,-0.0077800000000000005,-0.044294,-0.049445,0.005822999999999998,0.015889999999999994 ,-0.010471,0.0001979999999999994,-0.005013999999999999,-0.0011230000000000007,0.008547,-0.022513,-0.024814000000000003,-0.011541000000000001,-0.002648,-0.008961,-0.012516000000000001,-0.009566,0.00040300000000000015,-0.012996,0.003055

[Gallop]

The first one is quite balanced among all of them.

https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEheGdoXhxD8GjwUbXAz95slNzDTHYsScsxYjAqWegjdeY 5cA6BMjl5Qkc_k7orZa-MAQ1Q2sA9fyiRys_l3BlJLfntYLwmsXh_jivG_G8JA7uLdzeQQ fg-4ELCvcemmr2ozwtaPxZSjQjxrq-Ob5qv1ixKT9cktMY69KGYMNaE47ACsMK3zR87vj2cb/s1518/Vahaduo_Custom_PCAsimple.jpeg

I put something else in to see what was going on or if anything else could be seen and well yes.

https://blogger.googleusercontent.com/img/b/R29vZ2xl/AVvXsEgbp-ejq4Ce2cQLqDWTgpz0S0i4nZrngCAopCeWpoC9AWD_4i0i8e_F K1waO4EmYp8XStAEXnpdx-YNydz-ftkI3tYTZWBSameLwE8_jhtnjLuDsMyk7pVkTFTswjTMepTmOA s4KQXkGbhc6V9H7O1RwH8sw6KBeMbrC7ASCog_rSw5NCK2P-7C1vq9/s1518/Vahaduo_Custom_PCA.jpeg

[Boudin]

Distance*to: Boudin
0.02700264 Belgian:5434289058_R01C01
0.02785641 Belgian:5434289003_R04C02
0.02894734 Belgian:5434289041_R03C02
0.03030667 French:Brittany:Rennes_B_12
0.03075292 French:Alsace:A_42
0.03118087 Belgian:5434289003_R01C01
0.03181212 Belgian:5434289058_R03C02
0.03199568 French:Provence:S_17
0.03205180 French:Alsace:A_28
0.03294201 Belgian:5434289001_R04C01
0.03304701 Swiss_German:Swiss_German4
0.03310774 Swiss_French:Swiss_French7

Target: Boudin
Distance: 2.0578% / 0.02057753 | ADC: 1x RC
46.0 Belgian
30.8 French
23.2 Swiss_German

Target: Boudin
Distance: 1.4826% / 0.01482626
44.2 Belgian
17.2 Spanish
8.6 Turkish
6.6 Italian
5.0 Basque
3.8 German
3.8 Swedish
2.6 Sardinian
2.6 Swiss_German
2.4 Finnish
2.0 French
1.2 Dutch

[Dušan]

Target: Dušan_g25
Distance: 0.9595% / 0.00959464 | ADC: 0.5x RC
40.6 Moldovan
39.4 Serbian
13.6 Ukrainian
6.4 Croatian


2-way models:

0.0111 Dušan_g25 = 58% Ukrainian:Zakarpattia:EG600095 + 42% Albanian:ALB191
0.0121 Dušan_g25 = 51% Greek:Central_Macedonia:GREEKGRALPOP11 + 49% Belarusian:Belarusian7
0.0122 Dušan_g25 = 52% Serbian:Serbian_Serbia2 + 48% Moldovan:44618758492C01
0.0122 Dušan_g25 = 62% Serbian:Serbian_Serbia2 + 38% Russian:Kursk:Rkuch-53
0.0123 Dušan_g25 = 58% Serbian:Serbian_Serbia3 + 42% Moldovan_o:Moldovan_V46055
0.0124 Dušan_g25 = 56% Ukrainian:Zakarpattia:EG600094 + 44% Albanian:ALB212
0.0125 Dušan_g25 = 52% Bulgarian:BulgarianD6 + 48% Ukrainian:Sumy:EG600083
0.0126 Dušan_g25 = 53% Belarusian:Belarusian5 + 47% Greek: Peloponnese:623
0.0127 Dušan_g25 = 53% Moldovan:MOL-065 + 47% Ukrainian:Sumy:EG600080
0.0129 Dušan_g25 = 51% Polish: Polish12 + 49% Moldovan:MOL-065

[vader]

Target: Luso_scaled
Distance: 5.2048% / 0.05204787
34.8 TUR_Barcin_N
28.6 Yamnaya_RUS_Samara
18.6 TUR_Tepecik_Ciftlik_N
12.2 Western_Hunter_Gatherer
5.8 Levant_PPNB

Target: Luso_dad_scaled
Distance: 4.6102% / 0.04610178
49.2 TUR_Barcin_N
30.6 Yamnaya_RUS_Samara
11.8 Western_Hunter_Gatherer
8.4 Levant_PPNB

Target: Luso_mom_scaled
Distance: 4.7968% / 0.04796761
34.0 TUR_Barcin_N
30.2 Yamnaya_RUS_Samara
17.4 TUR_Tepecik_Ciftlik_N
11.8 Western_Hunter_Gatherer
6.6 Levant_PPNB

Target: LusoGF_Simulated
Distance: 1.7965% / 0.01796507
42.2 TUR_Tepecik_Ciftlik_N
36.2 Yamnaya_RUS_Samara
16.6 GEO_CHG
3.4 TUR_Barcin_N
1.6 Western_Hunter_Gatherer

[Vessna]

Target: Vessna_scaled
Distance: 7.6395% / 0.07639455
53.8 Yamnaya_RUS_Samara
29.8 TUR_Barcin_N
16.4 Western_Hunter_Gatherer


Target: Vessna_scaled
Distance: 0.8707% / 0.00870739
40.0 Lithuanian
24.4 Russian
19.0 Polish
8.0 Ukrainian
3.2 Karelian
3.2 Moldovan
1.0 Bedouin
0.8 Belarusian
0.4 Serbian

[Upsilander]

Target: Upsilander_Scaled
Distance: 1.1364% / 0.01136418
54.8 German
14.8 English
12.6 French
10.4 Basque
7.4 Danish


Target: Upsilander_Scaled
Distance: 1.6293% / 0.01629296 | ADC: 1x RC
50.6 German
31.2 French
18.2 English



Distance to: Upsilander_Scaled
0.02360931 English:HG01790
0.02711354 German:German47
0.02760477 Danish:GSM1985763
0.02770120 French:Brittany:French24090
0.02773808 Belgian:5434289001_R01C01
0.02848750 German:East:German:East7
0.02865998 Danish:GSM1985799
0.02889963 German:Erlangen:GSM1658651
0.02891858 Dutch:GSM1634016
0.02896843 German:Erlangen:GSM1658658
0.02940637 Dutch:GSM567110
0.02950666 German:East:German:East3
0.02972912 German:German3
0.02993234 German:German76
0.03004154 German:Erlangen:GSM1658622
0.03005878 German:Erlangen:GSM1658639
0.03007972 Danish:GSM1985821
0.03011235 Belgian:5434289051_R02C02
0.03058106 Belgian:5434289041_R03C01
0.03080775 Dutch:GSM566788
0.03093648 German:East:German:East8
0.03098841 Belgian:5434289003_R06C02
0.03101106 German:Erlangen:GSM1658616
0.03104498 Dutch:GSM1633968
0.03104915 Belgian:5434289041_R05C01

[Athalafuns]

Target: RNB27
Distance: 0.7402% / 0.00740244 | ADC: 0.25x RC
69.0 Spanish
18.8 Portuguese
10.8 Dutch
1.4 Swiss_French

Target: RNB27
Distance: 0.8860% / 0.00886035 | ADC: 0.5x RC
60.4 Spanish
21.6 Portuguese
18.0 Belgian

[ScandinavianCelt]

Target: SC_Official_Averaged_Scaled
Distance: 1.4482% / 0.01448184 | ADC: 2x RC
46.4 Danish
31.2 Irish
22.4 German

Target: SC_Official_Averaged_Scaled
Distance: 0.6454% / 0.00645421
32.6 Irish
21.4 Danish
18.0 Dutch
10.0 English
3.8 German
3.4 Moldovan_o
3.0 Karelian
2.6 Iranian
2.6 Polish
1.0 Swedish
0.8 Russian
0.8 Spanish