Is there any open proteomics repository like GEO?
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7.5 years ago
Diwan ▴ 640

Hello,

I would like to do metaanalysis of proteomics data. Is there any publicly available proteomics database or repository like GEO/arrayexpress?

Based on google search, I found: http://www.ebi.ac.uk/pride/archive/

Do you know of any other repositories/db?

Thanks

Diwan

proteomics-db proteomics arrayexpress GEO • 3.7k views
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7.5 years ago

I think PeptideAtlas might also have mass-spec data for samples that potentially have meta-data, but PRIDE is the main one that comes to mind.

It is much harder to find large, publicly available proteomics datasets (unless you count protein arrays: for example, I think TCGA has RPPA protein array data and there is also this website that can do some protein array analysis: http://app1.bioinformatics.mdanderson.org/tcpa/_design/basic/index.html )

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7.5 years ago
Dan D 7.2k

How about the Protein DataBank?

There's also Entrez Protein.

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7.5 years ago
Ahill ★ 1.9k

May want to check

Global Proteome Machine: http://gpmdb.thegpm.org/

Proteome Exchange (cross links with PRIDE): http://proteomecentral.proteomexchange.org/cgi/GetDataset

CPTAC data portal (focus on cancer): https://cptac-data-portal.georgetown.edu/cptacPublic/

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