Question: epigenetic database for immuncells
gravatar for tonja.r
5.0 years ago by
tonja.r460 wrote:


I am looking for epigenetic databases repositories for immune cells. The Blueprint Epigenome is quite nice but are there others projects?

Thank you in advance


chip-seq • 1.2k views
ADD COMMENTlink modified 5.0 years ago by Friederike5.2k • written 5.0 years ago by tonja.r460
gravatar for Friederike
5.0 years ago by
United States
Friederike5.2k wrote:

Depends on the cell types, species and data types you're interested in.

For very specific data sets, you can always give GEO and the SRA a chance where most people submit their data when publishing a paper. You could, for example, simply search for "ChIP-seq CD8" and have a look whether anything relevant pops up. The advantage of using data from consortia such as Blueprint is that their data generation and processing should be highly standardized which you cannot always expect from data submitted by labs that perhaps have never done ChIP-seq before.

Consortia similar to Blueprint are Roadmap and IHEC - most of these consortia consist of smaller subgroups that tackle very specialized tasks, e.g. the German contribution to IHEC (DEEP) focuses on human and mouse cells relevant for chronic metabolic and inflammatory diseases.

ADD COMMENTlink written 5.0 years ago by Friederike5.2k

Just to add to this relatively old post: ImmPort specifically focuses on all bioinformatics data related to immune cells. I find it a bit tedious to use, but in principle, there's a growing number of (clinically relevant) data sets to be used.

ADD REPLYlink written 13 months ago by Friederike5.2k
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