Help finding normal samples for DNA methylation on the 450K platform
0
0
Entering edit mode
2.2 years ago
Lunky ▴ 30

Hello I'm looking for more DNA methylation normal samples. I currently have data from TCGA and GEO for breast, kidney, lung, and thyroid. More specifically, I have all the normal samples from TCGA and have looked at the GEO sets below:

#GSE79100: kidney 31 normal * missing key probes
#GSE88883: breast n=100 * too many missing values
#GSE37754: breast n=10 (Non-tumor)  * missing key probe
#GSE66313: breast n=15 (Adjacent-Normal)

Any recommendations would be appreciated.

Edit: looking for more kidney/renal normal samples on 450K platform, below are data I have already looked at in addition to above:

# GSE61441: kidney n=46 normal * no age data
450K methylation • 521 views
ADD COMMENT
1
Entering edit mode

One thing I have found useful is to look at papers describing methylation clocks, because they usually report public datasets which are of high quality. For example look at the GEOs described in this paper in their data availability section. Or the classic Horvath paper.

ADD REPLY

Login before adding your answer.

Traffic: 2882 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6