Question: Illumina methylationEPIC demo data in IDAT format?
1
gravatar for Ellen O
2.4 years ago by
Ellen O10
Stellenbosch University
Ellen O10 wrote:

Does anyone know of an available data set for the Illumina EPIC/ 850k array that has files in IDAT format that one can download? I am testing a pipeline before I get my own data back and would like to start with the raw files. Illumina's demo data only has three samples and I would like to test out more.

Thank you in advance!

ADD COMMENTlink modified 2.4 years ago by Santosh Anand5.0k • written 2.4 years ago by Ellen O10
1
gravatar for Santosh Anand
2.4 years ago by
Santosh Anand5.0k
Santosh Anand5.0k wrote:

You can easily dload from GEO. The platform id is GPL21145

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL21145

Then choose a sample there, eg. GSM2309170

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM2309170

Bottom in the sample page, you have the IDAT file

Supplementary file  Size    Download    File type/resource
GSM2309170_200134080018_R03C01_Grn.idat.gz  7.0 Mb  (ftp)(http) IDAT
GSM2309170_200134080018_R03C01_Red.idat.gz  7.1 Mb  (ftp)(http) IDAT
ADD COMMENTlink modified 2.4 years ago • written 2.4 years ago by Santosh Anand5.0k

Thanks so much Santosh, I wasn't aware there was EPIC data on GEO!

ADD REPLYlink written 2.4 years ago by Ellen O10
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