In a move that I know will make our community of citizen scientists and Y-SNP researchers very happy, Dr. Jim Wilson sent me an email with a file containing the ScotlandsDNA/BritainsDNA Chromo2 Y-SNP positions and this announcement today:
ScotlandsDNA are happy to share the chromosome positions for the Y
chromosome SNPs on the chromo2 chip. We hope these catalyse a step
change in the development of the Y chromosome tree. Wherever we have
looked the structure has increased greatly in resolution, but we simply
do not have time to analyse all the data and so are sharing this file
with the community to allow everyone to take part. These are the first
fruits of whole Y chromosome sequencing, taken out into a much larger
population - the beginning of understanding what all the new markers
mean.
The file can be found here.
Thanks again, Jim!
I received an email from Dr. Jim Wilson of BritainsDNA today which included a link to a spreadsheet with Chromo2 Y-SNP results. He has given me permission to publish it with his comments:
We have finally got round to releasing an anonymised dataset of ~2000 chromo2Y results. This is an excel sheet with ~14,200 SNP results for ~2000 random men using the chromo2 chip, so will be a goldmine for discovering further genealogical structure in European haplogroups. I think it will be of great interest to genetic genealogists and others who are interested in breaking down their haplogroups and subgroups.
The link is:
https://www.britainsdna.com/download/C2_2000_v2.zip
(Updated 2/24/14)
Thanks again, Jim!
(For Advanced Y-DNA Researchers)
Dr. James Wilson from BritainsDNA has sent me a list of the alternate names for the Chromo2 Y-SNPs and has given me permission to post it for public access with his comments, as follows:
Please find attached a list of alternate names for chromo2 Y SNPs...This is based on comparisons some months ago now,
although a few SNPs have been updated in the meantime...Where there is no alternative name for an S SNP it means it was not
listed/named in any compendium, browser or database I had available when
this file was put together and is not available in any other product as
far as I am aware (of course apart from a complete Y chromosome
sequence).
Note that all the SNPs on this list manufactured on the chip, but a
small proportion do not give good genotyping clusters; I haven't had
time to clean them out. There are also a small number of SNPs not on
this list eg S28, S250, which we Taqman in the appropriate samples as
Illumina appear to have removed them from the design and they have no
proxies on the chip or none known.
In due course I also intend to share the genome co-ordinates to allow
comparisons with whole Y chromosome sequences, despite this being a case
of handing larger competitors the fruits of our investment. At present I
have started to do that for individual SNPs that are queried on a
case-by-case basis, as I don't as yet have the permissions of all of the
sequenced individuals to hand out their SNPs in this way.
You can find the list here. (Make sure you download the entire list and not just what is visible through Google Docs.)
Thanks, Jim!
