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Geno 2.0 Y-Chromosome Genome Comparison

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  • Geno 2.0 Y-Chromosome Genome Comparison

    Hello,

    I started, based on Geno 2.0 raw data that people shared with me, a comparison Y-DNA file, so that people can compare the data of different haplogroups.

    Here's the result file, so far: https://www.dropbox.com/s/zv0khjlk6g...mpare_view.zip

    If you are interested and want to participate you can check the details here: http://itai.perez.free.fr/GenoCompare/

    And you can also join the Facebook group to follow the updates: https://www.facebook.com/Geno20YdnaSnpComparison

    Sincerely,

    Itaï Perez.

  • #2
    Interesting thank you. I sent my data.

    What does it mean when the raw data for a y snp has two different letters? I thought they should always be the same because we only have one. For instance I have AT for PF1610 as do the E group. Every one else has AA. Is it that the primers match two locations and aren't unique enough? So other R men have only A returned but I returned equal responses from both T and A? Thank you

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    • #3
      Thomas Krahn explained that on a mailing list.
      Of course there is no heterozygoty in chromosome Y.
      But since some SNPs were difficult to detect, they tricked the chip into thinking there it to make it easier to distinguish positive and negative.
      So instead of AA and BB, for these SNPs, what is detected is AA and AB.
      Still since that is what appears on the raw file, I thought it better to leave it as it is.

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      • #4
        Ahh, makes sense. Thank you.

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        • #5
          No problem. Don't hesitate if you have other questions !

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          • #6
            I am a U152* with no new SNPs, who else is like this in the comparison file please?

            Originally posted by Itai View Post
            Don't hesitate if you have other questions !

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            • #7
              At the moment, there are 14 people who are negative to the 3 known subclades of R-U152. However, 5 of them are positive to one of three new SNPs below U152, which may well become new subclades.

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              • #8
                What does it mean for Khan J2a1 to have 00 for PF3605?

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                • #9
                  Thanks Itai

                  Can you please answer this?

                  Maillard, kit 34105 is Z56+ (R1b1a2a1a2b3) on the FTDNA SNP page, but is R1b1a2a1a2b in the results on the comparison file??

                  http://www.familytreedna.com/public/...x?section=ysnp
                  Last edited by Solothurn; 22 June 2013, 12:49 PM.

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                  • #10
                    I looked and looks like PF6601 is not tested in Geno

                    A known SNP tested at FTDNA not on the Geno 2 chip

                    So some could be Z56 but would still show as U152*. They would still have to Z56 SNP at FTDNA for $39, despite the so called 'deep clade replacement test!'



                    Originally posted by Solothurn View Post
                    Thanks Itai

                    Can you please answer this?

                    Maillard, kit 34105 is Z56+ (R1b1a2a1a2b3) on the FTDNA SNP page, but is R1b1a2a1a2b in the results on the comparison file??

                    http://www.familytreedna.com/public/...x?section=ysnp
                    Last edited by Solothurn; 22 June 2013, 01:05 PM.

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                    • #11
                      You could be onto something here! I think I found another person that is reported as U152 in the Geno 2.0 "stories list" but is actually Z56+ in the FTDNA U152+ Project.

                      Maillard is the only FTDNA Z56+ in Itai's chart at the moment, the other four Z56+ kits with Geno 2.0 results in the project should send their data to Itai.

                      One of the Z56+ kits is reported as "conflicting results/under investigation" in Steve Gilberts Geno tracker.
                      Last edited by mafe; 22 June 2013, 04:52 PM.

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                      • #12
                        Rich says PF6601 is tested on the chip

                        The nearest to PF6601 showing in the file are PF6600 and PF6602. These both give the same result for Maillard and U152*s

                        Here is the result file so far:
                        https://www.dropbox.com/s/zv0khjlk6g...mpare_view.zip
                        Last edited by Solothurn; 23 June 2013, 07:42 AM.

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                        • #13
                          PF6601 isn't on the chip but Z56 is.

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                          • #14
                            Thanks mafe I see it now!

                            Wonder why Maillard doesn't show for it then?

                            No luck on finding L159.2 in Geno yet

                            Originally posted by mafe View Post
                            PF6601 isn't on the chip but Z56 is.

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                            • #15
                              ok i will participate thanx

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