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Thread: Population genomics of the Viking world (bioxiv, 2019, Copenhagen)

  1. #761
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    Quote Originally Posted by deadly77 View Post
    Just a few points - there's no evidence yet that VK327 is I-S1990. The raw data hasn't yet been made available to check. The best we have is the authors designation of I1a2a1a1a1a (corresponds to I-YSC0000261) in the preprint and we haven't verified that yet (again due to raw data not available).

    I'd also point out that the TMRCA for I-S1990 is approximately 2400 years ago and I-YSC0000261 is approximately 3400 years ago based on the YFull estimate. This is either twice or three times as long ago as VK327, so while yourself and VK327 shared a common ancestor, it doesn't neccesarily mean that VK327 is your ancestor.

    There's also some issues with the order of SNPs that you have listed in your pathway - Z2535 is a branch point between Z140 and YSC0000261 rather than after YSC0000261; L41/PF3787 is not downstream of Z2535 - it's actually upstream as one of the SNPs that defines haplogroup I - basically, everyone who is I1 and I2 has the L41 mutation. These errors in placement are likely to you using the Morley haplogroup predictor, which hasn't updated their reference since 2013.
    Of course you are correct. There is no evidence yet that VK327 is S1990. I didn't say he was. I'm just pleasantly surprised to encounter an ancient DNA set with whom I am clearly related in my paternal line. Such an improvement over the GEDmatch ancients, with whom I share no significant amount of autosomal, Y, or mt genetics.

    I did err in uncritically copying Morley's results. I know better and should have caught that. OTOH, I have confirmed the T allele of YSC0000261's rs751841691 at ISSOG's Y phylotree. Unfortunately, as Geno 2's data transfer to FTDNA is direct I cannot independently confirm their S1990 assignment. My AncestryDNA's run did not sequence rs767832354.
    Interesting factoid: My user name, Stone Meadow, is a translation of my Old English given name, Hidden Content .
    Known Paper Trail: Paternal line emigrated from England in 1667. Maternal (Patrilineal) line emigrated from Scotland in 1648.
    Y Haplogroup: I1>M253>DF29>Z58>Z59>Z60>Z140>Z2535>YSC0000261>S19 90 [FTDNA Big Y-700 batched 11/11/2019 in batch 1022]
    mtHaplogroup: H1c2 [FTDNA FMS completed 11/15/2019]

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     JMcB (09-15-2019),  JonikW (09-09-2019)

  3. #762
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    Does anyone have a link to the full paper and the autosomal results ? cheers

  4. #763
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    Quote Originally Posted by Roger View Post
    Does anyone have a link to the full paper and the autosomal results ? cheers
    It is still a pre-print, so we'll probably be waiting a year (perhaps) for the final paper and genome data, but the best you'll get for now is: https://www.biorxiv.org/content/10.1101/703405v1.full you can find two PDFs and an Excel file in the supplementary information link, the excel file might be of some use in terms of at least getting some kind of visual of the autosomal data for the samples.

  5. The Following 4 Users Say Thank You to spruithean For This Useful Post:

     evon (10-18-2019),  JMcB (09-15-2019),  Roger (09-15-2019),  Wing Genealogist (09-15-2019)

  6. #764
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    Many thanks

  7. #765
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    Seems like 23andme might have read this paper, as now all my profiles that were updated in October, have lost their "South West Irish signal". Further to the point, our British regions are now lesser than before the update and they are all listed as weak.

  8. #766
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    Dún Laoire, Bláth Cliath, Éire
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    Quote Originally Posted by evon View Post
    Seems like 23andme might have read this paper, as now all my profiles that were updated in October, have lost their "South West Irish signal". Further to the point, our British regions are now lesser than before the update and they are all listed as weak.
    Just logged in to have a look (caveat I've a V3 test). It would seem I'm now 0.5% Scandinavian
    (R1b-DF41+)
    (MtDNA: U4d3)

    How to pronounce my username (modern Irish):
    Hidden Content

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     evon (10-18-2019)

  10. #767
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    Quote Originally Posted by Dubhthach View Post
    Just logged in to have a look (caveat I've a V3 test). It would seem I'm now 0.5% Scandinavian
    I will have a look later at the Irish profiles I share with, but I would not be surprised if many have trace amounts of Scandinavian.. Although 23andme is far from perfect yet...

    I am fairly certain that most, if not all of the remaining British % we have will turn out to be Danish and German, as the German/French % have risen by about 10% for most of my profiles, while we all lost our Irish %.. But I hope samples from this study will be available soon...

  11. #768
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    So I had a look at my own Irish matches at 23andme (4 grandparents from Ireland), and I see that the majority now has some French/German, and or Scandinavian % (often NW European, or broadly European too). So it is starting to shift..

    Surprisingly nearly all my Irish matches has low levels of Central-South Asian % (some have western Asian traces too), strange, I wonder if that is noise or real..

  12. #769
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    Quote Originally Posted by evon View Post
    So I had a look at my own Irish matches at 23andme (4 grandparents from Ireland), and I see that the majority now has some French/German, and or Scandinavian % (often NW European, or broadly European too). So it is starting to shift..

    Surprisingly nearly all my Irish matches has low levels of Central-South Asian % (some have western Asian traces too), strange, I wonder if that is noise or real..
    I get Trace amount Central-South Asian 0.3%, before I had none.
    Gedmatch
    Kit Num: M129412, QA3736362
    23andme
    Hidden Content
    LivingDNA
    Hidden Content

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     evon (10-18-2019)

  14. #770
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    Just an update concerning when we might expect to see the published article, and the BAM files.

    Yesterday, in the comments section to the pre-print in BioRxiv (see https://www.biorxiv.org/content/10.1101/703405v1), the author, Margaryan replied to a question as to when the "dataset" is likely to be available. His answer was,

    The paper is currently in review, so it might take few more months after the resubmission.

    I take it this means, "don't hold your breath". Guess we are looking at the spring as the best case scenario. Pity it takes so long - but on the other hand pleased that we have something quite tangible to work with in the meanwhile.

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