Question: List Of Snps On Illumina Omni 5M Genotyping Array
2
gravatar for pufferfish
8.0 years ago by
pufferfish260
South Africa
pufferfish260 wrote:

Where can I find the positions and rsids of SNPs on the Illumina Omni 5M array?

The Illumina site doesn't have it, and (strangely) only allows access to support files for existing customers.

illumina genotyping • 6.6k views
ADD COMMENTlink modified 4.2 years ago by RJDan0 • written 8.0 years ago by pufferfish260

Did you try emailing illumina?

ADD REPLYlink written 8.0 years ago by Sean Davis26k

Yes. The response was that it's only available in "iControl DB" or the support files, which is restricted to Illumina customers.

Can't fathom why a company would make this information hard to find.

ADD REPLYlink written 8.0 years ago by pufferfish260
2
gravatar for pufferfish
8.0 years ago by
pufferfish260
South Africa
pufferfish260 wrote:

Seems the UCSC database has it:

http://hgdownload.cse.ucsc.edu/goldenPath/hg19/database/snpArrayIlluminaHumanOmni1_QuadRaw.txt.gz

ADD COMMENTlink written 8.0 years ago by pufferfish260

The linked file has only 1.13 million SNPs...

ADD REPLYlink written 5.8 years ago by Nick Crawford210

This is omni1_quad, an earlier version, the difference is here http://www.illumina.com/Documents/products/datasheets/datasheet_gwas_roadmap.pdf. omni5 is the newest version

ADD REPLYlink written 3.9 years ago by sinorenjianyi40
0
gravatar for RJDan
4.2 years ago by
RJDan0
UK
RJDan0 wrote:

Perhaps this helps?

http://www.well.ox.ac.uk/~wrayner/strand/

ADD COMMENTlink written 4.2 years ago by RJDan0
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