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Thread: Gencove

  1. #76
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    1 members found this post helpful.
    Quote Originally Posted by unorigional View Post
    To throw in my two cents here, I had the impression that Gencove was trying to be better at detecting ancestry at the continental resolution. If you go through their website they have an affiliation with an effort to sequence more South Asians. So, they may be paring down the number of European components to allow more clusters elsewhere?

    I actually took the plunge and submitted a sample for their own analysis. They are doing sparse sequencing as opposed to using the SNP specific chips. I'm curious to see the difference, but their low coverage sequencing hits way more bases on the DNA and Joe Pickrell makes what seems to me a good case for it (https://medium.com/the-seeq-blog/it-...g-73535efa66ed). I guess I'll find out in late Jan if it makes any difference at all.

    In the mean-time, here is what I got for my 23andMe v4 data:

    Attachment 9562

    Aside from the Ashkenazi, which is nonesense and probably just a poorly chosen grouping, the rest is pretty consistent with what I have seen in other calculators and what I know of my ancestry.

    As for the motivations of the big testing companies and the sometimes bizzaro advertisements they do, just consider this:

    Ancestry is tied to the Mormons. They have an obsession with genealogy and genetic genealogy makes a lot of sense. Their end game is not figuring out your admixture. They want more people that can be linked together via DNA to build their massive family tree database even more.

    23andMe: they just want your medical data because that is going to be hugely valuable to sell to pharma companies. After all, they sequence your genome for the health data regardless of whether you pay for it or not (fun fact, you can take their data and input it into other services such as promethease and get all the health data they would have sold you and more).

    Can't speak to the motivation of the others, but I personally don't think the admixtures they give you are their real end goals.
    You linked to gencove data, not 23andme.


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    Quote Originally Posted by alexfritz View Post
    fully agree i think DNA.Land might even be the most detailed for south european ancestry yet the way i see it i do view all calcs (i tested with at least) as equal reputable; maybe its a shift between CHG/WHG which tilts the north_italian either side? though in my case it was first mostly assigned to sardinian-sicilian k25 and once the sardinians were removed it than got further assigned to greek-albanian k29 and in that regard i am seeing something like this haak et al 5way mixture EEF/EN based;
    Attachment 9564

    same here, anthrogenica is just blank though the activity stream reads an error code, not sure but i read in report that someones security software picked something up shortly before it blanked;
    That’s really interesting that you say WHG vs CHG might make the difference. I never thought about looking at a sub component to see which way the major component might sway. Makes sense! We like to use labels and words to simplify our categorizations but really all components are multilayered.

    Similar to when someone says that category is “Celtic” or “Germanic” or “Roman.” Really it means nothing because there is variation in each label and each label is multilayered.

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    Quote Originally Posted by Angela View Post
    You linked to gencove data, not 23andme.
    That's right. I meant that this was Gencove's results using my 23andMe data. I won't have the results from Gencove's sequencing for about another month. I'll post that once I have it.

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    Quote Originally Posted by unorigional View Post
    That's right. I meant that this was Gencove's results using my 23andMe data. I won't have the results from Gencove's sequencing for about another month. I'll post that once I have it.
    Great. That will be interesting to see.

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    DNA land are one of the only ones that confirmed a relative of which I have communicated many times and have linked between each of our family trees at about year 1780
    Name:
    Anna Bolzan
    7 cousin
    25 shared segments
    137.14 Total shared length
    BTW, can we load more kits through DNAland now?

    .................................................. ........
    My wife also confirmed a cousin via DNaland and family trees

    Name:
    Guy Barbato

    11 cousin

    17 shared segments

    71.44 Total shared length
    có che un pòpoło no 'l defende pi ła só łéngua el xe prónto par èser s'ciavo

    when a people no longer dares to defend its language it is ripe for slavery.

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    Quote Originally Posted by Sile View Post
    my Gencove
    37% Eastern Mediterranean
    37% Northern and Central Europe
    23% Southwestern Europe
    I have never had more than 2% iberian on any company.........but have had a high percentage of French-basque from many companies ............maybe my 23% SW Europe is that they used all the border people of Spain and France as iberians
    Big oops ....I stuffed up, I only uploaded my fathers data to Gencove and above is his.
    I uploaded to get the free prometheuse report which arrived yesterday..........his ills and blood type match the results and he had issues with these but did not pass away due to them.
    My father did have SW Europe and had matches with an area covering Girona and Perpignan , he also had many matches with Toulouse and Montpellier areas due to relatives moving there between 1875 and 1920

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    my results. Seems pretty descent.


    Fathers results

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    @Angela

    #533 K25 sardinian-sicilian and why sardinians were removed from that cluster in K29
    https://anthrogenica.com/showthread....aza-com/page54
    It seems that the enhanced drift In Sardinians, Who are part of the SC European references in the K 25 is suppressing South Central European scores in European testers

    Although isolation of the Sardinians is a good thing in terms of preserving South Central European substructure for the past few thousand years and thus they can be seen as genetically unchanged
    representatives of south-central Europeans as they were a few thousand years ago while populations around them in mainland Europe were constantly changing. This is what makes them more “pure” south-central Europeans than other populations in my view, and was one of the main reasons for their inclusion into my K 25 SC European component, and this is definitely a pro .

    The con for their inclusion is that there enhanced genetic drift due to isolation is suppressing South Central European scores in testers some

    So far we have seen with testers is that some west Asians and a few select Europeans ( mainly Italians) have the highest South Central European scores, an indicator that those testers share the highest drift with south-central Europe’s original inhabitants

    The problem is that this is creating a little confusion for some testers who are used to seeing more elevated South Central European scores and other tests.

    At This point I am still considering the pros versus the cons of including Sardinians in the south central European component and will make an announcement when I reach a decision


    @ Jovialis p.66#655
    https://anthrogenica.com/showthread....age-DNA/page66

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    I already told you I don't care to see it.

    I already said it was nothing but garbage too.

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    Alex, ignore everything sikeliot posts.

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    My wife is half Italian (Naples and Northern Italy). Here are her Southern Europe scores from various companies:

    23andMe:
    Italian: 32.5%
    Iberian: 5.2%
    Broadly Southern: 8.9%

    DNA Land:
    South/Central European: 33%
    Southwestern European: 4.6%


    FTDNA:
    Iberian: 32%
    Southeastern Europe: 14%
    Sephardic: 14%

    Is the FTDNA algorithm really that off or does this mean it’s just really hard to differentiate Southern European alleles?

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    Quote Originally Posted by mwauthy View Post
    My wife is half Italian (Naples and Northern Italy). Here are her Southern Europe scores from various companies:

    23andMe:
    Italian: 32.5%
    Iberian: 5.2%
    Broadly Southern: 8.9%

    DNA Land:
    South/Central European: 33%
    Southwestern European: 4.6%


    FTDNA:
    Iberian: 32%
    Southeastern Europe: 14%
    Sephardic: 14%

    Is the FTDNA algorithm really that off or does this mean it’s just really hard to differentiate Southern European alleles?
    How did 32-33 percent Italian turn into 32 percent Iberian? Yeah FTDNA isn't looking any better. Plus the questionable 14 percent Sephardic....

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    Quote Originally Posted by davef View Post
    How did 32-33 percent Italian turn into 32 percent Iberian? Yeah FTDNA isn't looking any better. Plus the questionable 14 percent Sephardic....
    The map for Sephardic is the Iberian Peninsula. So my half British/ half Italian wife is 46% Iberian Map according to FTDNA.

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    Quote Originally Posted by alexfritz View Post
    @Angela

    #533 K25 sardinian-sicilian and why sardinians were removed from that cluster in K29
    https://anthrogenica.com/showthread....aza-com/page54
    It seems that the enhanced drift In Sardinians, Who are part of the SC European references in the K 25 is suppressing South Central European scores in European testers

    Although isolation of the Sardinians is a good thing in terms of preserving South Central European substructure for the past few thousand years and thus they can be seen as genetically unchanged
    representatives of south-central Europeans as they were a few thousand years ago while populations around them in mainland Europe were constantly changing. This is what makes them more “pure” south-central Europeans than other populations in my view, and was one of the main reasons for their inclusion into my K 25 SC European component, and this is definitely a pro .

    The con for their inclusion is that there enhanced genetic drift due to isolation is suppressing South Central European scores in testers some

    So far we have seen with testers is that some west Asians and a few select Europeans ( mainly Italians) have the highest South Central European scores, an indicator that those testers share the highest drift with south-central Europe’s original inhabitants

    The problem is that this is creating a little confusion for some testers who are used to seeing more elevated South Central European scores and other tests.

    At This point I am still considering the pros versus the cons of including Sardinians in the south central European component and will make an announcement when I reach a decision


    @ Jovialis p.66#655
    https://anthrogenica.com/showthread....age-DNA/page66
    I don’t think removing the Sardinians helped the South Central Europeans at all for K29 because Sicily alone is not a good proxy. Central or Northern Italian samples might have been better. My dads 27% South Central on DNA Land became all Southwestern on k29.

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    Quote Originally Posted by mwauthy View Post
    The map for Sephardic is the Iberian Peninsula. So my half British/ half Italian wife is 46% Iberian Map according to FTDNA.
    It's only highlighted to show where Sephardic Jews heavily settled, the Iberian peninsula. It wouldn't be reasonable to highlight anyplace else, and to add, Sephardic Jews aren't Iberian genetically.

    Being 1/4 from Naples with the rest being 1/4 north Italian and 1/2 British shouldn't make you 46 percent Iberian, from what I can tell.

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    1 members found this post helpful.
    If there's no Southern Central component centered on Italy, everything else is going to be off. You can't just have SW and SE Europe.

    Tuscany seems the logical choice: Northern Italy is too Northern and Southern Italy/Sicily too Southern. There's a reason 1000 Genomes chose them as the reference for the Central Med.

    Until this calculator has such a cluster it will be useless for Italians or even for Balkans people. Having Tuscany as the reference would make clear the genetic relationship that we see with the Balkans from PCAs.

    I said from the beginning that it was clear that Sardinians are far too drifted to be used. Sicilians as a reference isn't all that much better.

    I'm sorry to say it but I'm very disappointed in this calculator.

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    1 members found this post helpful.
    gencove UPDATE! 01/2018 with new clusters

    FTDNAb_37_concatenated / FTDNAb_37_autos
    OR6Bph6.jpg BmhDQQ2.jpg

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    2 members found this post helpful.
    I'm pleased that a specific cluster has been inserted for Northern Italy. But now my results diverge considerably from the previous ones

    Inviato dal mio SM-A300FU utilizzando Tapatalk

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    1 members found this post helpful.
    Quote Originally Posted by Stuvanè View Post
    I'm pleased that a specific cluster has been inserted for Northern Italy. But now my results diverge considerably from the previous ones

    Inviato dal mio SM-A300FU utilizzando Tapatalk
    I'm about to give up on all of these things except 23and me. How does that make any sense for someone 100 per cent from the Romagna?

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    1 members found this post helpful.
    mine upgraded yesterday.
    ,

    .
    starting to get closer to yfull data which has my snp dated as 1460BC.
    Yfull matches for me relating to this gencove data
    1x Hessian germany
    3x walloon and lorraine france ...........these could be close relatives to each other
    1x south tyrol italy
    1x spain Pyrenees area Mediterranean side
    .
    note: central asia is 1% ..........other sites have me as 0.8% for it

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    2 members found this post helpful.
    How did you people get your maps to post?

    For what it's worth:


    • 57%Northern Italy
    • 29%Southwestern Europe
    • 7%Northern and Central Europe
    • 7%Anatolia, Caucasus, Iranian Plateau



    It's not bad, but if I didn't know my identity, this wouldn't tell me. The Northern Europe numbers go down, and the Anatolia, Caucasus shows up. Have no idea what that means.


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    23andme:

    93% Eastern Mediterranean
    7% South-West Europe

    AncestryDNA:

    78% Eastern Mediterranean
    22% South-West European

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    Quote Originally Posted by Angela View Post
    How did you people get your maps to post?

    For what it's worth:


    • 57%Northern Italy
    • 29%Southwestern Europe
    • 7%Northern and Central Europe
    • 7%Anatolia, Caucasus, Iranian Plateau



    It's not bad, but if I didn't know my identity, this wouldn't tell me. The Northern Europe numbers go down, and the Anatolia, Caucasus shows up. Have no idea what that means.

    i use postimage , its free as long as you do not go overboard

    snip map, save, upload on postimage

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    1 members found this post helpful.
    Quote Originally Posted by Dibran View Post
    23andme:

    93% Eastern Mediterranean
    7% South-West Europe

    AncestryDNA:

    78% Eastern Mediterranean
    22% South-West European

    Here's a blogpost from someone else who got results all over the place:

    https://gizmodo.com/how-dna-testing-...bab-1820932637

    "The CEO of GenCove, the company where I had uploaded my 23andMe data to get drastically different results, told me that even though he expects a fair amount of variability between algorithms, even he was surprised at how differently his company and 23andMe had interpreted my DNA data. He asked me to also upload my Ancestry data, and ran both data sets again after GenCove’s algorithm had been updated. The results were all over the map.“To be honest I’m a little confused about what’s going on,” CEO Joseph Pickrell told me.


    Each testing company is looking at different alleles from different parts of the genome, and using different algorithms to crunch that data. (You can see a list of how company tests differ here.) It’s worth mentioning that genetics is also probabilistic: just because you have the gene, doesn’t mean you have the trait."

    I don't understand your high SW Euro from one company. In my case, we're right next door, and we have some "Spanish" and "French" yDna.

    One thing is consistent, almost no one ever gets "Italian" scores higher than mine. My father, old school nationalist that he was, would be very happy. :)

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    Overall activity: 12.0%

    Y-DNA haplogroup
    R1a-L1029*
    MtDNA haplogroup
    H11a2*-146+

    Ethnic group
    Albanian/Gheg/Dibran/Okshtun
    Country: United States



    Quote Originally Posted by Angela View Post
    Here's a blogpost from someone else who got results all over the place:

    https://gizmodo.com/how-dna-testing-...bab-1820932637

    "The CEO of GenCove, the company where I had uploaded my 23andMe data to get drastically different results, told me that even though he expects a fair amount of variability between algorithms, even he was surprised at how differently his company and 23andMe had interpreted my DNA data. He asked me to also upload my Ancestry data, and ran both data sets again after GenCove’s algorithm had been updated. The results were all over the map.“To be honest I’m a little confused about what’s going on,” CEO Joseph Pickrell told me.


    Each testing company is looking at different alleles from different parts of the genome, and using different algorithms to crunch that data. (You can see a list of how company tests differ here.) It’s worth mentioning that genetics is also probabilistic: just because you have the gene, doesn’t mean you have the trait."

    I don't understand your high SW Euro from one company. In my case, we're right next door, and we have some "Spanish" and "French" yDna.

    One thing is consistent, almost no one ever gets "Italian" scores higher than mine. My father, old school nationalist that he was, would be very happy. :)
    I usually score Italian in every calc in some form or another. 14 Italian over all with LivingDNA. I wonder what is so off with their algorithm?

    In AncestryDNA for instance, their main site has be as 84% Albania/Greece/Turkey, 15% North-East Italy/Croatia/Bosnia and 1% Finnish(LOL). I am surprised by the huge South-West Euro for the Ancestry upload. My Fathers by comparison(with 23andme) is 88% Eastern Mediterranean and 12% South-West European.

    Someone mentioned people with Sardinian like admixtures are scoring South-West Europe in Gencove. It would make sense, since theres an obvious(for whatever reason) shift towards Sardinia for my father and myself.

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