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  • Yes FF-Illumina is More Accurate

    Here's an FYI.

    I had a FF Affy match that did not show up on my mother's list. For a time I thought this person was a paternal match due to not matching my mother but I knew we can't go by the excluded matches, only the included ones, when the segments shared are small, like a 5th cousin's in this case. Then I saw there was a HIR match for my mother and I both to this person. I began to suspect that Affy had missed it and this person was a maternal match of mine after all.

    Today when my mother's Illumina resuts appeared I found out HIR was right and Affy was wrong. This person, a 5th cousin predicted, is my maternal match, not paternal match after all.

    It's nice to see in this case where HIR picked up a match that Illumina was accurate enough to pick it up as well. Sure this is probably not a problem in the 3rd and 4th cousin ranges but those 4th to distant and 5th to distant ones just may be found by Illumina when Affy missed them.

    .
    Last edited by mkdexter; 10 March 2011, 06:58 PM.

  • #2
    More to come??

    Matt, I know that you are following the new FF very closely. I just got my very first Illumina results. PreviouslyI had 65 Affy matches. In my first batch of Illumina I have received 33 matches.

    24 of the new matches are Illumina only, the other 9 are Affy conversions. At this rate is it possible that I could get a significant number of matches?

    If so, then perhaps this might provide an answer to my bio-father question.

    Comment


    • #3
      I'd say you will get 63 - 65 of your past Affy matches and maybe, as in my case, a few Affy converted kits that were missed before. You are also seeing all the new tests that were on hold so your numbers are looking really good.

      I have 27 new Illumina matches I didn't have before and I have 13 Affy converted matches. I have 73 total Affy matches so that's a little less than 20% of my matches being back. Yours looks like about 14% of your matches back. Not unreasonable. There's a lot of kits that are not converted yet.

      I think you will be good and of course there are still more Illumina new kits coming in every week too.



      Good luck!

      Comment


      • #4
        I checked my moms kit.

        She had 67 Affy and now has 6 of them back. That's a lot less than 20% or 14%, more like 9%.. wow!

        She has 2 kits that were Affy but did not show up before... Although I had some indications they were maternal matches to me.. one I mentioned already and one just found looking at all her matches.

        So she has 31 new Illumina matches, 2 Affy matches that she didn't have before but I did, and 6 more converted Affy that she had before.

        So yes there are a lot of new kits coming in and not that many converted yet. It's going to take that full eight weeks I think for the conversions.

        They did order more parts to increase production by the way so soon they will be processing even more than they are now. Have to give them some credit as that's a lot of kits to be processing non-stop at a no cost to us.

        Considering there are at least two matches that Affy missed for my mother's kit I'm feeling confident that Illumina is coming out more accurate and with many less errors.

        .

        .
        Last edited by mkdexter; 11 March 2011, 12:37 AM.

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        • #5
          Originally posted by mkdexter View Post
          I checked my moms kit.

          She had 67 Affy and now has 6 of them back. That's a lot less than 20% or 14%, more like 9%.. wow!

          She has 2 kits that were Affy but did not show up before... Although I had some indications they were maternal matches to me.. one I mentioned already and one just found looking at all her matches.

          So she has 31 new Illumina matches, 2 Affy matches that she didn't have before but I did, and 6 more converted Affy that she had before.

          So yes there are a lot of new kits coming in and not that many converted yet. It's going to take that full eight weeks I think for the conversions.

          They did order more parts to increase production by the way so soon they will be processing even more than they are now. Have to give them some credit as that's a lot of kits to be processing non-stop at a no cost to us.

          Considering there are at least two matches that Affy missed for my mother's kit I'm feeling confident that Illumina is coming out more accurate and with many less errors.

          .

          .
          Matt, I have 15 Illumina matches and only 4 of them are converted Affy ones.

          Judy

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          • #6
            Matt - do you think we'll be able to download the Illumina FF files soon? or only after they're all caught up? I understand they're working on the methodology for PF, which makes sense, but I don't quite get why the data we're viewing on our own pages can't be available for download? (Now that I actually I have my Illumina results, I'm impatient to be able to download them! It's always somethin' i'n't it?

            Originally posted by nolnacsj View Post
            Matt, I have 15 Illumina matches and only 4 of them are converted Affy ones.

            Judy

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            • #7
              Originally posted by dwight View Post
              Matt - do you think we'll be able to download the Illumina FF files soon? or only after they're all caught up? I understand they're working on the methodology for PF, which makes sense, but I don't quite get why the data we're viewing on our own pages can't be available for download? (Now that I actually I have my Illumina results, I'm impatient to be able to download them! It's always somethin' i'n't it?
              I don't know. They wanted to make it available right away but there's a file problem with the raw data being formatted for download. In other words getting it from the database, to text based comma delimited, to zip format; somewhere in that process is a bug. I don't know where and asking means interrupting a lot of IT work.

              It almost came out but didn't. I've noticed even my old Affy raw data is coming out wrong now like my mom's did months ago where most of it is not text comma delimited, just comma delimited until almost the very last part which includes the "" used by the computers to mean text format comma delimited.

              At the moment there are bugs to fix and they say Pop Finder is a priority for the IT (Information technology) staff. I think I'd go with letting them work on PF but that's just me. Of course I would like the raw data too but they have to determine which item takes priority and I know PF has a high priority.
              Last edited by mkdexter; 11 March 2011, 01:05 AM.

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              • #8
                Ff

                TO those who are wondering it is know past 3 weeks on Affy for people who sent in to change to Illumina. I was told their was an unexpected delay but they are know running the way they should.



                Cheryl

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                • #9
                  My first Illumina results arrived last night, and I have gone from having no 3rd cousins to having 3 new 3rd cousins. Not a one of them has a gedcom or surname list, however. I hope I will hear from them. Also one of my affymetric
                  speculative matches is now a close match. There are 20 cousins on my new illumina results. I had a total of 46 matches on the affymetric chip.
                  Donna

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                  • #10
                    That Affy error rate always bugged me. It was the main reason I did the 23 thing. I'm thrilled that FTDNA went to Illumina, now the best company is matched with the best chip. I give FTDNA a lot of credit. I just think they could have communicated a bit more. I like that fourth cousins are now shown at log in. It was too confusing for new folks to log in and see no cousins at all.

                    If all the on hold kit relatives have already shown up and they are now mostly on new orders and conversions I will continue my trend of having fewer matches here than most folks. All my kin must have done 23 for health.. at least judging by my second cousin and four third cousins who are sitting there anonymous. It was so nice last night when I got my results I emailed my new fourth cousin the first ten minutes and got a reply a half hour later. Much less painful.

                    Comment


                    • #11
                      Originally posted by Kasandra View Post
                      If all the on hold kit relatives have already shown up
                      They probably haven't, I'm still waiting for my kit conversion so no doubt others are too. Many people should still be seeing more relatives from the existing customers soon.

                      Comment


                      • #12
                        I didn't mean the conversions, I meant the folks that bought the sale or whatever from last year w their testing on hold. I assume they'd run all those before running existing customers who had some results even if they were Affy.

                        Comment


                        • #13
                          FF Illumnia matches

                          I know have my Illumina matches I have 5 pages at this time. My mothers brother has 10 pages. We share under 5 matches 1 match we knew before FF and 1 match we knew of her family.

                          So far I lost one of my matches but my Uncle has him. One of my cousins got him with Illumina and she had him with Affy.

                          One of my matches for FF is also my uncles MTDNA Match but my Uncle did not get him as a match with FF.



                          Cheryl

                          In the end I will find out all.

                          Comment


                          • #14
                            Ff

                            CORRECTION we share a total of 17 matches together


                            Originally posted by CAM View Post
                            I know have my Illumina matches I have 5 pages at this time. My mothers brother has 10 pages. We share under 5 matches 1 match we knew before FF and 1 match we knew of her family. (CORRECTION we share a total of 17 matches together)So far I lost one of my matches but my Uncle has him. One of my cousins got him with Illumina and she had him with Affy.

                            One of my matches for FF is also my uncles MTDNA Match but my Uncle did not get him as a match with FF.



                            Cheryl

                            In the end I will find out all.

                            Comment


                            • #15
                              I was converted 2 days ago and chugging along with 153 matches so far. I have 254 under Affy.

                              While I've corresponded with many people about our common Ashkenazi heritage, most people do not have the extensive paper trail (or even oral history) to be able to make the connections. Sometimes all we know is our common ancestors probably came from Belarus. On my maternal grandfather's side, I have nothing further than the names of his parents. Maternal grandmother's side is not much better. Paternal side is entirely speculative - I have a HUGE documented online family tree that I may or may not be connected to.

                              So I was quite pleased when someone I match on HIR (but not FF) wrote and said that her uncle's Illumina results showed me as a 4th-Distant cousin and a known cousin's results should be showing up shortly. We've been comparing notes as her uncle has a half-dozen 2nd cousin matches, some of whom are matches (3rd to distant) of mine. I was able to tell her who belonged to whom (parent/child and other known relatives I'm aware of) so she's got a better idea of what the completed puzzle might look like. We're not there yet but having several 2nd cousin matches sounds like progress can be made!

                              Gaye

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