Question: Roadmap Epigenomics Project Sample Amalgamation of Same Tissue?
1
gravatar for Shicheng Guo
3.3 years ago by
Shicheng Guo7.7k
Shicheng Guo7.7k wrote:

Hi All,

I download the 5mC methylation (WGBS) data from Roadmap Epigenomics Project. However, I found only 37 column were existed in the FractionMethylation (fm) files?

http://egg2.wustl.edu/roadmap/data/byDataType/dnamethylation/WGBS/

But I know there are several biological replications in Epigenome Roadmap Project. Why only one tissue was existed in the finally file? such as STL002EG and STL003EG.

STL002EG-01 Esophagus STL003EG-01 Esophagus

Thanks.

ADD COMMENTlink modified 3.3 years ago • written 3.3 years ago by Shicheng Guo7.7k
1
gravatar for Shicheng Guo
3.3 years ago by
Shicheng Guo7.7k
Shicheng Guo7.7k wrote:

Okay. I have receive the reply from Dr. Misha Bilenky. I still keep the record here so that It would be helpful for others.

That is correct - for several tissues/ cell types there were more than one replicates. The consortium decided to combine those to increase coverage of CpGs. As result there is just one data column per tissue.

Best,

Misha Bilenky

ADD COMMENTlink written 3.3 years ago by Shicheng Guo7.7k
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