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Thread: online NGS/WGS studies

  1. #1
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    online NGS/WGS studies

    I am exploring online NGS/WGS datasets too look at the frequency of R-U106 and its subclades. To date, I am aware of the Open Search project at: https://search.hli.io/?q= and the Swedish Genome project at: https://swegen-exac.nbis.se/

    Is anybody aware of other online NGS/WGS datasets which would include either number of individuals or percentage of male individuals within the dataset who are positive for Y-SNPs?

    Both of these datasets require users to ask for (and receive) permission to access the dataset. Neither dataset utilizes the SNP names (such as U106) but use the ChrY: position to identify them.

    The SweGen Project uses the Hg19 (Build 37) positions which can easily be found at YBrowse http://ybrowse.org/gb2/gbrowse/chrY/?
    But the Open Search dataset uses the newer Hg38 (Build 38) positions.

    Does anyone know of an easy way to find the Hg38 position from Hg19 position data? I am aware of the hg Lift Over utility at: https://genome.ucsc.edu/cgi-bin/hgLiftOver but I have difficulty using this utility. [EDIT: I have received help with obtaining Hg38 data already]

    BTW: The U106 Tree can be downloaded from: https://app.box.com/s/afqsrrnvv2d51msqcz2o
    Last edited by Wing Genealogist; 08-27-2017 at 04:34 PM.
    Gedmatch DNA: M032736 Gedcom: 6613110.
    Gedmatch Genesis: WH4547538
    co-administrator: Y-DNA R-U106 Haplogroup Project

  2. The Following User Says Thank You to Wing Genealogist For This Useful Post:

     Dubhthach (08-26-2017)

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