Fennoscandia Biographic Project(Scandinavian genetics)

[evon]

Do anyone know if the La Brana 1 and 2 hunter gatherers had any south European (farmer) ancestry?

Iknow they are Iberian samples, but from what i can remember they are Mesolithic..

[AndersP]

Iknow they are Iberian samples, but from what i can remember they are Mesolithic..

Just did test run using about 10k SNP on Chr1 for La Brana 1. His position on the PCA was on the horizontal as most of the Saamis and some Finns but on the vertical more like the position of the Tuscans.

[Jackson]

Just did test run using about 10k SNP on Chr1 for La Brana 1. His position on the PCA was on the horizontal as most of the Saamis and some Finns but on the vertical more like the position of the Tuscans.

What do you think that might suggest?

[Graham]

Should really keep an eye on this thread, looks interesting. Good work.

[AndersP]

What do you think that might suggest?

This is only chromoosme 1, it may change when accumulating more chromosomes.

[evon]

Anders, could you check if the "Roma" match my granny if i send you her raw file? also, do you do chromosome paintings at all?

[AndersP]

Anders, could you check if the "Roma" match my granny if i send you her raw file? also, do you do chromosome paintings at all?

I am not sure yet of what "threshold" the Chromopainter-Finestructure pipeline use but as far as I can see its not visible neither on the heatmaps or PCA plots. I plan to increase the number of SNP from the current 289k it may be able to see more subtle differences in ancestry.

[AndersP]

What do you think that might suggest?

I see La Brana 1 is in about the same position as in the research paper supplement. So it seems I have it right.

[AndersP]

What do you think that might suggest?

Only with 1 chromosome and 10k there is not really any good resolution of the variation at the European level but at global level you can see variation. My first interpretation of this is that the La Brana 1 pull away from the main European cluster because of part Siberian or East-Asian like ancestry and pull toward the Africans for the same reason.

[AndersP]

It got the genotypes from both La Brana individuals and a total of 183k SNPs that match the 1000K project. I have also done a test run vs the 1000k project European panel (Brits, Iberians, Finns, Tuscans) + Chinese + Yoruba in Chromopainter-Finestructure, and some genetic distance runs through other analysis software. It looks good, see similarity vs the findings in the original research paper and I already see interesting things vs modern populations NOT seen in this paper. I will later today begin the process to analyze this vs the project participants and European reference panels. This new run will not be ready tonight.