Differences between DnaGenics & Illustrative DNA G25 coordinates (gixajo enana coords)

[gixajo]

If someone is interested in comparing both.

Synthetic=DNA Genics

scaled=Illustrative DNA= Davidski real coordinates.

Target: gixajo_enana_scaled
Distance: 4.0958% / 0.04095769
58.0 TUR_Barcin_N
24.6 Yamnaya_RUS_Samara
17.0 WHG
0.4 MAR_Taforalt

Target: gixajo_enana(synthetic)
Distance: 4.3082% / 0.04308186
56.2 TUR_Barcin_N
27.2 Yamnaya_RUS_Samara
16.0 WHG
0.6 MAR_Taforalt

https://i.postimg.cc/W1kkGvnY/gixajo-enana-PCA.png (https://postimg.cc/G4btR66v)

[gixajo]

gixajo´s family ancient standard model results:

https://i.postimg.cc/RVQF4ZgB/gixajo-family.png (https://postimages.org/)

PCA Europe 1

https://i.postimg.cc/W1hQS9FH/gixajo-family-PCA.png (https://postimg.cc/ZWz75xL8)

[Katarzyna]

That is actually very close. Can you also add “self-simulated” G25 by using your K36 choords and transfer them from allelocator? Or is it the same thing dnagenics does already ?

[gixajo]

Quite different.

Target: gixajo_enana_scaled
Distance: 2.2272% / 0.02227249
38.4 Spanish_Soria
35.0 Basque_Spanish
14.0 Sardinian
6.8 French_Paris
4.8 Slovakian
0.6 Ju_hoan_North
0.4 Tunisian_Rbaya

Target: gixajo_enana(synthetic)
Distance: 0.6782% / 0.00678243
53.4 Basque_French
19.6 Basque_Soule
6.2 Sardinian
5.0 Italian_Lombardy
4.4 English_Cornwall
3.6 Georgian_NorthEast
2.4 French_Bearn
2.4 Spanish_Asturias
1.8 Russian_Kaluga
0.8 Bantu_Kenya
0.4 Yemenite_Jew


Distance to: gixajo_enana_scaled
0.02919971 Spanish_Soria
0.02926544 Spanish_Aragon_North
0.02979102 Spanish_La_Rioja
0.02997745 Spanish_Castello
0.03068843 French_Bigorre
0.03129948 French_South
0.03145883 Basque_Navarre_Center
0.03164378 Spanish_Catalunya_Central
0.03206497 French_Chalosse
0.03222466 Spanish_Burgos

Distance to: gixajo_enana(synthetic)
0.01364167 Spanish_Biscay
0.01495712 Spanish_Burgos
0.01608703 French_Bearn
0.01648139 French_South
0.01712946 French_Chalosse
0.01763657 Spanish_Aragon_North
0.01772636 French_Bigorre
0.01773677 Spanish_La_Rioja
0.01795569 Basque_French
0.01842169 Spanish_Barcelones

[gixajo]

That is actually very close. Can you also add “self-simulated” G25 by using your K36 choords and transfer them from allelocator? Or is it the same thing dnagenics does already ?

In the PCA 3 coords are close, but results and distances to different pops are different.

https://i.postimg.cc/NGHXYvyx/gixajo-enana-3coords.png (https://postimg.cc/K4mjrVDK)

Distance to: gixajo_enana_K36sim
0.01104271 Spanish_Aragon_North
0.01129947 Basque_Navarre_Center
0.01220697 French_South
0.01225094 French_Bearn
0.01255529 French_Chalosse
0.01318871 French_Bigorre
0.01366179 Basque_Roncal
0.01390729 Basque_Lower_Navarre
0.01413732 Spanish_Biscay
0.01416677 Spanish_Burgos

Distance to: gixajo_enana_scaled
0.02919971 Spanish_Soria
0.02926544 Spanish_Aragon_North
0.02979102 Spanish_La_Rioja
0.02997745 Spanish_Castello
0.03068843 French_Bigorre
0.03129948 French_South
0.03145883 Basque_Navarre_Center
0.03164378 Spanish_Catalunya_Central
0.03206497 French_Chalosse
0.03222466 Spanish_Burgos

Distance to: gixajo_enana(synthetic)
0.01364167 Spanish_Biscay
0.01495712 Spanish_Burgos
0.01608703 French_Bearn
0.01648139 French_South
0.01712946 French_Chalosse
0.01763657 Spanish_Aragon_North
0.01772636 French_Bigorre
0.01773677 Spanish_La_Rioja
0.01795569 Basque_French
0.01842169 Spanish_Barcelones

**********************************************

Target: gixajo_enana_scaled
Distance: 2.2272% / 0.02227205
38.0 Spanish_Soria
34.8 Basque_Spanish
14.2 Sardinian
7.2 French_Paris
4.8 Slovakian
0.6 Ju_hoan_North
0.4 Tunisian_Rbaya

Target: gixajo_enana(synthetic)
Distance: 0.6808% / 0.00680810
53.0 Basque_French
19.0 Basque_Soule
6.6 Italian_Lombardy
5.2 Sardinian
4.0 French_Bearn
3.8 English_Cornwall
2.8 Georgian_NorthEast
2.4 Spanish_Asturias
1.6 Russian_Smolensk
0.8 Bantu_Kenya
0.4 Georgian_Megr
0.4 Yemenite_Jew

Target: gixajo_enana_K36sim
Distance: 0.4370% / 0.00436957
40.0 Basque_Spanish
13.8 Basque_Biscay
9.2 Basque_French
8.2 Basque_Lower_Navarre
6.6 Basque_Soule
6.0 Sardinian
5.6 Spanish_Extremadura
4.8 Lithuanian_PZ
1.6 Spanish_Pais_Vasco
1.2 Yemenite_Mahra
1.0 BedouinB
1.0 Georgian_Guria
0.8 Berber_Tunisia_Chen
0.2 Sorb_Niederlausitz

[gixajo]

In the ancient standard model 3 are very similar, at least the 3 show the same "tendency", normal EEF, low Yamnaya, high WHG , low MAR_Taforalt (for Iberian typical average results I mean).

Target: gixajo_enana_scaled
Distance: 4.0958% / 0.04095769
58.0 TUR_Barcin_N
24.6 Yamnaya_RUS_Samara
17.0 WHG
0.4 MAR_Taforalt

Target: gixajo_enana_K36sim
Distance: 4.0887% / 0.04088660
56.4 TUR_Barcin_N
25.4 Yamnaya_RUS_Samara
17.6 WHG
0.6 MAR_Taforalt

Target: gixajo_enana(synthetic)
Distance: 4.3082% / 0.04308186
56.2 TUR_Barcin_N
27.2 Yamnaya_RUS_Samara
16.0 WHG
0.6 MAR_Taforalt

[rothaer]

Quite different.

Target: gixajo_enana_scaled
Distance: 2.2272% / 0.02227249
38.4 Spanish_Soria
35.0 Basque_Spanish
14.0 Sardinian
6.8 French_Paris
4.8 Slovakian
0.6 Ju_hoan_North
0.4 Tunisian_Rbaya

Target: gixajo_enana(synthetic)
Distance: 0.6782% / 0.00678243
53.4 Basque_French
19.6 Basque_Soule
6.2 Sardinian
5.0 Italian_Lombardy
4.4 English_Cornwall
3.6 Georgian_NorthEast
2.4 French_Bearn
2.4 Spanish_Asturias
1.8 Russian_Kaluga
0.8 Bantu_Kenya
0.4 Yemenite_Jew


Distance to: gixajo_enana_scaled
0.02919971 Spanish_Soria
0.02926544 Spanish_Aragon_North
0.02979102 Spanish_La_Rioja
0.02997745 Spanish_Castello
0.03068843 French_Bigorre
0.03129948 French_South
0.03145883 Basque_Navarre_Center
0.03164378 Spanish_Catalunya_Central
0.03206497 French_Chalosse
0.03222466 Spanish_Burgos

Distance to: gixajo_enana(synthetic)
0.01364167 Spanish_Biscay
0.01495712 Spanish_Burgos
0.01608703 French_Bearn
0.01648139 French_South
0.01712946 French_Chalosse
0.01763657 Spanish_Aragon_North
0.01772636 French_Bigorre
0.01773677 Spanish_La_Rioja
0.01795569 Basque_French
0.01842169 Spanish_Barcelones

Actually K36sim here are closer to real than are synthetic coords (simulated by DNAgenics), lol.

[gixajo]

Actually K36sim here are closer to real than are synthetic coords (simulated by DNAgenics), lol.

But we have the problem that distances of the results are so close that we can see that there is some type of "problem" with K36 coords.

I think that the synthetic coords show the results I expected for Sara knowing where her ancestors come from, K36 are too extreme, and real coords results are somewhat stranges for me.

Actually the three results show the same tendency: she is a very-close-to-Basque individual(I mean purest ones that are used as reference) . Genetically a typical peri-Basque individual as my mother from Álava province is.

I will use the real ones because the other 3 coords are also the real ones and it´s important to mantain a coherence criterium using coords from the same source to compare us, but in my opinion synthetic ones are the ones I liked the most for her.

[Beowulf]

But we have the problem that distances of the results are so close that we can see that there is some type of "problem" with K36 coords.

I think that the synthetic coords show the results I expected for Sara knowing where her ancestors come from, K36 are too extreme, and real coords results are somewhat stranges for me.

Actually the three results show the same tendency: she is a very-close-to-Basque individual(I mean purest ones that are used as reference) . Genetically a typical peri-Basque individual as my mother from Álava province is.

I will use the real ones because the other 3 coords are also the real ones and it´s important to mantain a coherence criterium using coords from the same source to compare us, but in my opinion synthetic ones are the ones I liked the most for her.

How much did you paid for the synthethic one's?

[rothaer]

But we have the problem that distances of the results are so close that we can see that there is some type of "problem" with K36 coords.

I think that the synthetic coords show the results I expected for Sara knowing where her ancestors come from, K36 are too extreme, and real coords results are somewhat stranges for me.

Actually the three results show the same tendency: she is a very-close-to-Basque individual(I mean purest ones that are used as reference) . Genetically a typical peri-Basque individual as my mother from Álava province is.

I will use the real ones because the other 3 coords are also the real ones and it´s important to mantain a coherence criterium using coords from the same source to compare us, but in my opinion synthetic ones are the ones I liked the most for her.

Exactly.

You may prefer a new system with the synthetic coords of DNA geneics but here again applies, what you said, the references themselves do also have real G25 coords so comparing synthetic coords with the real coords of the references in the spread sheet would also be weird. You would need the whole spreadsheet with synthetic coords. But then we both don't yet know if you still "like" the results.

Btw. K36 catches data including modern genetic drifts while G25 is more into ancient DNA which as for today can be more considered "basal". Both things are "correct". It just depends on what you want to display. You can make two very different pics of New York, both of which are true.