Transferring fastQ data from ArrayExpress database to Galaxy

Welcome, @Maryam_Momeni

In short, yes :slight_smile:

Click into the full sample table view at that link, and you’ll see the accession identifiers per sample. Those should be also available at NCBI SRA. I just confirmed this by testing the first one: https://www.ncbi.nlm.nih.gov/search/all/?term=ERS2519373

These tutorials cover how to manipulate sample tables for batch data uploads. That includes sample organization (usually worth it, so highly recommended!). But, you can also just isolate the accessions out of the table, and use a tool like Faster Download and Extract Reads in FASTQ format from NCBI SRA.

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