From where to download human proteome atlas raw data
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3.6 years ago

Hi! I wish to download the RNASeq/scRNAseq data for human brain from human proteome atlas however, I can't find any link on atlas page. Can anyone help me in this regard?

RNA-Seq • 845 views
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Which page are you specifically referring to?

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3.6 years ago
jaro.slamecka ▴ 240

If you mean Human Protein Atlas and depending on what you want to do with the data, you might find useful downloads here: https://www.proteinatlas.org/about/download

However, these are mostly summaries. On RNA level, Protein Atlas aggregates data from at least 3 sources: HPA itself, GTEx and FANTOM5. HPA raw RNA-seq data should be here according to the website: https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-1733/

It could also be useful to download gene lists from Protein Atlas found to be associated with a specific tissue type, possibly by exploring a link like the one below. This could be an option rather than trying to directly compare your data to the raw data which is rarely straightforward. https://www.proteinatlas.org/humanproteome/brain/human+brain#regional_expression_within_the_brain

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