List Of Snps On Illumina Omni 5M Genotyping Array

Question

[pufferfish]

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.

[Sean Davis]

Did you try emailing illumina?

[pufferfish]

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.

Answer 1

[pufferfish]

Seems the UCSC database has it:

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

[Nick Crawford]

The linked file has only 1.13 million SNPs...

[sinorenjianyi]

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

Answer 2

[RJDan]

Perhaps this helps?

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