Modern West Eurasia PCA G25 scaled individuals

**SouthDutch7991** · 01-24-2023, 04:35 PM

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.

Coordinates I used:

https://drive.google.com/file/d/113h...ew?usp=sharing

Also semi-organized
https://drive.google.com/file/d/1Ftl...ew?usp=sharing

**Beowulf** · 01-24-2023, 04:46 PM

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** · 01-24-2023, 06:18 PM

Would you post the coordinates again?

**SouthDutch7991** · 01-24-2023, 06:30 PM

Originally Posted by alnortedelsur

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/1DuA...ew?usp=sharing

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

**alnortedelsur** · 01-24-2023, 07:09 PM

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** · 01-24-2023, 07:18 PM

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** · 01-24-2023, 07:26 PM

PCA Plot:

**noricum** · 01-24-2023, 07:51 PM

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** · 01-24-2023, 07:58 PM

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

Code:

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):

**SouthDutch7991** · 01-24-2023, 09:23 PM

Originally Posted by 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

Code:

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):

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?