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tirsdag 29. januar 2013

Updated local Fennoscandian analysis

New individuals added. We see much the same structure as seen before. However we see two Finns who share recent Saami ancesty groups together. We can as before differentiate between different influences between the different groups. The main sources is from Scandinavians, Finns and what appear to be two different kind of Saamis, North-Saami group and a South-Saami group. The South-Saami seems to diivide Swedes with ancestry from Dalarna and northwards out of the main Scandinavian cluster in different grades. Also Swedes with partly Finnish ancestry pull towards Finns. Finns again have different grades of sharing with Scandinavians.

ChunkCounts Aggregated Populations

 ChunkCounts Aggregated PCA 

 ChunkCounts Aggregated Individuals 

 ChunkCounts Raw Individuals  

ChunkCounts PCA Individuls

 ChunkLenght Aggregated Populations 

  ChunkLenght Aggregated PCA  

  ChunkLenght Aggregated Individuals 

tirsdag 8. januar 2013

Oceania influence in East-Asians

This is offtopic regarding the project goals but its so interesting I have to make a post about it. It appeared already in my first analysis including East-Asians, Siberians and Native Americans that these had increased sharing with my Sub-Sahara African individuals than many Europeans and therefore shared branch. I suspected then it may have something to do with Oceania like Papuans and Melanasians. In the most recent Chromopainter/Finestructure run it appears to confirm this.

Here we see first of all that the closest relatives to the cluster of Pygmy, San and a Bantu from Kenya outside Africa are a Papuan and a Melanasian. Then secondly to a Cambodian and a Panyian. This influence is also to a weaker extent seen in a clustered groups from Pakistan through i India to Malaysia.

However we can also see that among that the East-Asians in particular the populations from or close to China all have the highest level of sharing with the Africans, then to a weaker extent Siberian groups and at weakest with the Native Americans. This pattern is also seen vs the Papuan and Melanasian but to much stronger extent.

This pattern probably show that this Oceanic must be the influence of ancient migration as its even shows among all the Native Americans and is also shared between San, Pygmys and Papuan and Melanasian.

Updated Chromopainter/Finestructure World analysis

Same settings as before but added more populations (or basically almost the rest of populations I have in my reference database) from Middle-East, Caucasus and all the way to Pacific/Oceania. To properly view the images open them and copy them to a image program like MS Paint or something similar or just download them directly from the source webpage where you will get them in full size.

All members should have received the image through email, this time I have put them into Excel windows that make it easier to view individual result. I have only added 1 individual from each of the more distant populations, but it seems even with only 1 individual the analysis software manage to cluster and tree them quite well. Notice also that in worldview some individuals and populations that is close to each other will merge into the most similar cluster.

So what new information can be seen by adding more populations?

We now got a range of main European clusters seen in ChunkLenght (most of these can be further divided):

1. Common Scandinavian-Orcadian-PartBritish cluster
2. Common Lithuanian-Belorus-Ukrainian-Mordovian-Russian cluster
3. Common Saami-Finnish cluster
4. Common Sardininan-PartIberian-Basque cluster
5. Common Hungarian-Romanian-French-PartBritish-PartIberian-Spanish-Italian cluster
6. Common Caucasus-Middle-East cluster

From the heatmaps its possible to infer the following:

1. Scandinavians appears to have more similarity vs Middle East and Caucasus cluster than Saamis and Finns. Saamis and Finns share more with the Chuvash.

2. Saamis appears to show considerable sharing vs a group of northern Siberians however this appears to be mostly attributable to only 1 Saami individual. The single Aleut in the panel is partly mixed with Europeans and therefore shows more genetic sharing vs Europeans.

Whole analysis heatmaps:

ChunkCounts Aggregated World 

ChunkCounts Aggregated Raw World

ChunkLenght Aggregated World