Question: What is common source of DNA- methylation raw data read files?
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gravatar for ak259369
18 months ago by
ak2593690
ak2593690 wrote:

I am new bie in DNA methylated world and looking for general source for raw data read files for applying to some methylation analysis tools. Please help me by sharing the link for that.

Thanks

dna-methylation • 512 views
ADD COMMENTlink modified 18 months ago by Charles Warden7.6k • written 18 months ago by ak2593690
1
gravatar for genomax
18 months ago by
genomax80k
United States
genomax80k wrote:

Sequence data (including DNA-methylation) can be found in two public repositories. NCBI SRA and EBI-ENA.

ADD COMMENTlink modified 18 months ago • written 18 months ago by genomax80k
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gravatar for Charles Warden
18 months ago by
Charles Warden7.6k
Duarte, CA
Charles Warden7.6k wrote:

You can also deposit SRA data (the raw .fastq.gz files) through GEO, to have linked processed data sets.

I'm not sure if you are looking for a specific type of BS-Seq data, but there is also microarray DNA Methylation data in GEO (Illumina Array, MeDIP, etc.).

For arrays, you can search for specific platforms within GEO: https://www.ncbi.nlm.nih.gov/geo/browse/

Otherwise, the platform is probably the sequencing technology; so, you would want to search for "BS-Seq," "RRBS," etc among the data sets: https://www.ncbi.nlm.nih.gov/geo/

ADD COMMENTlink written 18 months ago by Charles Warden7.6k
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