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Thread: U152 - BritainsNDA Chromo2 Results

  1. #1
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    U152 - BritainsNDA Chromo2 Results

    don't know if more than two U152+ folks opted to try out Britains Chromo2, but I thought I would start a U152 specific thread.

    My raw Chromo2 results were provided to me "unofficially" with my results pending further sequencing by BritainsDNA. I appreciate the speed by which they got my results having already had a EA sample which was for just one SNP four years ago.

    Like GENO 2.O Chip results there are issues with SNP reliability which all needs to be sorted out over time. Some L21 folks, which is their bread and butter clade, are having updated results and this will likely continue.

    First I compared my results for 24287 SNPs using the list provided of alternative names with my Full Genomes data and found generally good agreement, though the interesting S SNPs wait to be defined. Some defined SNPs are not part of the FGC standard reports and I am not yet able to mine the bam files.

    BritainsDNA also provided results added at the bottom for me being S28/U152+ and S139/L2+ which I presume was from additional sequencing as the chip does not have a working site for these SNPs.

    I then looked at all Chromo2 SNPs which was reported positive for and compared them with Bolgeris (L20+) who posted his postive results. I am L2* just upstream and under U152+, so I ignored when we were both positive though there a likely simulataneous errors.

    I then looked at other preliminary data posted in various places for L21+ and U106+ persons, albeit very preliminary. I also looked for where SNPs had questions based on defintion. When we were postive with U152- folks or there was a question I ignored that data.'

    This left me with two positive SNPS CTS1476+ & S8709+. However CTS1476+ was a nocall in FGC with a heterosygosity rating of 0.15625.

    Both myself (L2*) and Bolgeris (L20+) share S8709+, though my guess it may end up on the uncertain pile. Bolgeris was also S3856+, but I am not.

    I will review this pending further updates of the raw data. Again this is all preliminary data from BritainsDNA.

    It also shows the real value now in having just the summary data set from Full Genomes Corporation used in Excell with VLOOKUP.
    Last edited by haleaton; 12-08-2013 at 01:35 AM.

  2. The Following 4 Users Say Thank You to haleaton For This Useful Post:

     Kwheaton (12-08-2013),  MitchellSince1893 (12-08-2013),  R.Rocca (12-08-2013),  Solothurn (12-08-2013)

  3. #2
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    My Chromo2 Raw Unofficial Results - Jonas Eaton S28/U152 S139/L2* For Reference

    For comparison of other preliminary raw data sets here are my positive Chromo2 SNPs, however final version is still in works "Results need further sequencing - we will contact you when ready." Similar to initial GENO 2.0 results many SNPs, but particularly for the undefined S SNPs, are also positive for folks who are clearly U152-. Many of these SNPs are under review. U152+ & L2+ were sequenced separately from the current chip.

    Eaton (FTDNA Kit# 125963) R-L2*:

    CTS10008+, CTS10149+, CTS11150+, CTS11226+, CTS11468+, CTS11575+, CTS11948+, CTS11991+, CTS12057+, CTS12633+, CTS12773+, CTS1476+, CTS1738+, CTS2134+, CTS2254+, CTS2480+, CTS2569+, CTS2664+, CTS3229+, CTS3315+, CTS3316+, CTS3358+, CTS3654+, CTS3818+, CTS3844+, CTS4293+, CTS4437+, CTS4740+, CTS4944+, CTS5139(+), CTS5248+, CTS543+, CTS6058+, CTS6327+, CTS6376+, CTS6383+, CTS6445+, CTS7206+, CTS7301+, CTS7604+, CTS7659+, CTS7922+, CTS7941+, CTS8627+, CTS8728+, CTS9200+, CTS9556+, CTS9760+, F1794+, L1002+, L1013+, L1053+, L1084+, L1098+, L1105+, L1118+, L1123+, L1129+, L1130+, L1137+, L1143+, L1145+, L1150+, L1179+, L1220+, L132+, L1345+, L1350+, L1352+, L265+, L278+, L320+, L352+, L438+, L440+, L468+, L470+, L479+, L498+, L508+, L543+, L58+, L604+, L741+, L752+, L757+, L768+, L773+, L822+, L82+, L875+, L882+, L969+, M213+, M235+, M294+, M299+, M415+, M42+, M523+, M526+, M74+, P128+, P131+, P135+, P139+, P140+, P141+, P142+, P143+, P151+, P158+, P159+, P160+, P163+, P224+, P225+, P226+, P229+, P230+, P232+, P233+, P234+, P236+, P239+, P242+, P244+, P245+, P280+, P282+, P284+, P285+, P294+, P295+, P297+, P305+, P310+, PAGE081+, PAGE083+, PF1030+, PF1067+, PF1081+, PF1252+, PF1253+, PF1416+, PF1695+, PF1911+, PF256+, PF2590+, PF2592+, PF2615+, PF2617+, PF2619+, PF2621+, PF2622+, PF2624+, PF2626+, PF2629+, PF2651+, PF2653+, PF2655+, PF2658+, PF2660+, PF2677+, PF2679+, PF2683+, PF2684+, PF2685+, PF2688+, PF2690+, PF2700+, PF2702+, PF2704+, PF2709+, PF2716+, PF2718+, PF2722+, PF2734+, PF2736+, PF2737+, PF2739+, PF2742+, PF2747+, PF2748+, PF2760+, PF2762+, PF2775+, PF3495+, PF3500+, PF5459+, PF5461+, PF5480+, PF5495+, PF5857+, PF5861+, PF5865+, PF5869+, PF5870+, PF5872+, PF5873+, PF5885+, PF5887+, PF5893+, PF5898+, PF5908+ PF5912+, PF5914+, PF5917+, PF5918+, PF5923+, PF5927+, PF5936+, PF5940+, PF5941+, PF5945+, PF5949+, PF5953+, PF5957+, PF5958+, PF5964+, PF5966+, PF5977+, PF5980+, PF5981+, PF5982+, PF6016+, PF6040+, PF6047+, PF6055+, PF6056+, PF6063+, PF6065+, PF6079+, PF6082+, PF6114+, PF6115+, PF6116+, PF6129+, PF6136+, PF6143+, PF6145+, PF6242+, PF6246+, PF6249+, PF6252+, PF6258+, PF6263+, PF6265+, PF6267+, PF6269+, PF626+, PF6271+, PF6272+, PF6399+, PF6409+, PF6410+, PF6419+, PF6429+, PF6430+, PF6432+, PF6434+, PF6435+, PF643+, PF6443+, PF6451+, PF6463+, PF6467+, PF6469+, PF6471+, PF6475+, PF6481+, PF6484+, PF6487+, PF6495+, PF6497+, PF6506+, PF6507+, PF6524+, PF6528+, PF653+, PF6541+, PF679+, PF733+, PF744+, PF825+, PF834+, PF869+, PF948+, S10738+, S11330+, S1159+, S11638+, S116+, S12547(+), S128+, S138+, S1572+, S16059+, S163(+), S19739+, S1984(+), S19862(+) S1+, S2003+, S2017+, S20246+, S20315+, S26361+, S26903+, S26911+, S27544+, S27668+, S27730+, S349+, S3509+, S351+, S3848+, S3+, S4888+, S4+, S5025+, S6378+, S8235+, S8587+, S8620+, S8626+, S8628+, S8634+, S8648+, S8670+, S8705+, S8706+, S8709+, S8714+, S8726+, S8751+, S9040+, S9041+, S9158+, S9189+, S932+, S959+, SRY10831(+), V102+, V104+, V126+, V168+, V186+, V187+, V221+, V226+, V231+, V241+, V29+, V41+, V52+, V9+, YSC0167+, YSC0186+, YSC0203+, YSC0227+, YSC1297+, Z1244+, Z2069+, S139+, S28+

  4. #3
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    Claxon (PF4363+) is awaiting his Chromo2 results. Maybe good for comparison?

  5. #4
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    Quote Originally Posted by Solothurn View Post
    Claxon (PF4363+) is awaiting his Chromo2 results. Maybe good for comparison?
    Hi folks
    Yes, I am awaiting results. They also did NOT have my prior results ( allele frequency etc) from about day one at EthnoAncestry, but DID have my saliva.

    Rather than any SNP number, As an Englishman, I am more interested in what they come up with regarding
    a) Area or county of origin in Britain
    b) percent of "Kingdom" in Britain reflected in my DNA, such as Welsh, Cornish, Orcadian, Scots, Irish, English ( Anglo Saxon) etc,
    They also said that I would be the first PF4363 in their files ( IF that is correct and the final SNP in my DNA), they are not certain of any accuracy in some things,,, so, it looks like I may be right in that the geographical origin may only be markers on a map where other u152/s28 are located.

    As the Kipling/ Clarkson families seem to be one family, perhaps
    pre surname, the origin would be Yorkshire. (PF4363) I have said to BritainsDNA, that I think ( per other input from our knowledgable posters) that PF4363 is a Kipling/ Clarkson clan marker, MAY be La Tene Briton, and MAY be a marker for the Parisii / Brigantes tribe. Of course, they have announced in the past that s-28 is PROBABLY, in SOME cases, a marker for Roman Legionairies.
    I hope this can be narrowed down, hence my participation with Britains DNA/ research

    Rich

  6. #5
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    Quote Originally Posted by haleaton View Post
    don't know if more than two U152+ folks opted to try out Britains Chromo2, but I thought I would start a U152 specific thread.

    My raw Chromo2 results were provided to me "unofficially" with my results pending further sequencing by BritainsDNA. I appreciate the speed by which they got my results having already had a EA sample which was for just one SNP four years ago.

    Like GENO 2.O Chip results there are issues with SNP reliability which all needs to be sorted out over time. Some L21 folks, which is their bread and butter clade, are having updated results and this will likely continue.

    First I compared my results for 24287 SNPs using the list provided of alternative names with my Full Genomes data and found generally good agreement, though the interesting S SNPs wait to be defined. Some defined SNPs are not part of the FGC standard reports and I am not yet able to mine the bam files.

    BritainsDNA also provided results added at the bottom for me being S28/U152+ and S139/L2+ which I presume was from additional sequencing as the chip does not have a working site for these SNPs.

    I then looked at all Chromo2 SNPs which was reported positive for and compared them with Bolgeris (L20+) who posted his postive results. I am L2* just upstream and under U152+, so I ignored when we were both positive though there a likely simulataneous errors.

    I then looked at other preliminary data posted in various places for L21+ and U106+ persons, albeit very preliminary. I also looked for where SNPs had questions based on defintion. When we were postive with U152- folks or there was a question I ignored that data.'

    This left me with two positive SNPS CTS1476+ & S8709+. However CTS1476+ was a nocall in FGC with a heterosygosity rating of 0.15625.

    Both myself (L2*) and Bolgeris (L20+) share S8709+, though my guess it may end up on the uncertain pile. Bolgeris was also S3856+, but I am not.

    I will review this pending further updates of the raw data. Again this is all preliminary data from BritainsDNA.

    It also shows the real value now in having just the summary data set from Full Genomes Corporation used in Excell with VLOOKUP.
    Hal, I think it is a long shot, but it could be that S8709 is below L2 but above Z367, which would mean it would have been no-calls in all of the 1000 Genome datasets. It is impossible to know until BritainsDNA tells you the position.
    Paternal: R1b-U152 >> L2 >> FGC10543 >> PR5365, Pietro Rocca, b. 1559, Agira, Sicily, Italy
    Maternal: H4a1-T152C!, Maria Coto, b. ~1864, Galicia, Spain
    Mother's Paternal: J1+ FGC4745/FGC4766+ PF5019+, Gerardo Caprio, b. 1879, Caposele, Avellino, Campania, Italy
    Father's Maternal: T2b-C150T, Francisca Santa Cruz, b.1916, Garganchon, Burgos, Spain
    Paternal Great (x3) Grandfather: R1b-U106 >> L48 >> CTS2509, Filippo Ensabella, b.~1836, Agira, Sicily, Italy

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  8. #6
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    Jacques BEAUGRAND R-U152 > L2 > Z49 > Z142 > Z150 > (familial L553+) has published his Chromo2 data over in Molgen. He is S8709+ also.

    http://eng.molgen.org/viewtopic.php?...p=18983#p18983

  9. #7
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    Quote Originally Posted by haleaton View Post
    Jacques BEAUGRAND R-U152 > L2 > Z49 > Z142 > Z150 > (familial L553+) has published his Chromo2 data over in Molgen. He is S8709+ also.

    http://eng.molgen.org/viewtopic.php?...p=18983#p18983
    Unfortunately it looks like it will not be of use to us...it has been found in L21 and U106 samples as well.
    Paternal: R1b-U152 >> L2 >> FGC10543 >> PR5365, Pietro Rocca, b. 1559, Agira, Sicily, Italy
    Maternal: H4a1-T152C!, Maria Coto, b. ~1864, Galicia, Spain
    Mother's Paternal: J1+ FGC4745/FGC4766+ PF5019+, Gerardo Caprio, b. 1879, Caposele, Avellino, Campania, Italy
    Father's Maternal: T2b-C150T, Francisca Santa Cruz, b.1916, Garganchon, Burgos, Spain
    Paternal Great (x3) Grandfather: R1b-U106 >> L48 >> CTS2509, Filippo Ensabella, b.~1836, Agira, Sicily, Italy

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  11. #8
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    Thanks! I thinks also even if these uncertain S SNPs were accurate for U152+ and wrong for the others it would be highly unlikely they would not appear in my Full Genomes results if we knew the definitions, though a few might be missed.

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    "Final" Chromo2 Results

    S28BDNATree2013.jpgReceived "final" Chromo2 results which includes a look at the full BritainsDNA tree as of today. Some brief discussions of U152 and European and UK distribution maps. I image copied and pasted the portion of my tree relevant to U152 though it does show the other branches and what they they test for in tree format. I hand edited in the Z SNP and L SNP definitions equivalent to the S ones used.

    Though like any company they had problems such as getting L2 and U152 to work on the chip and had to back fill by additional testing, what I got was as accurate (R-L2*) with negative tests for the two main branches below L2. I think overall, for me, it is a better roll-out than GENO 2.0 was.

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  14. #10
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    Would you be willing to post the S28 distribution maps? I saw on another forum where someone had posted their S145/L21 maps from BritainsDNA and am curious about how S28/U152 would look.
    Y DNA line continued: Z142>Z12222>FGC12378>FGC12401>FGC12384
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