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3.8 years ago
louis-gil • 0

Does anyone know where I can download cancer raw reads (fastq files), tumor and Germline for non-humans?

sequence RNA-Seq next-gen • 2.2k views
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Why not apply for them? Typically a PI does it on your behalf (so you write it, they sign it). Plenty of material then available from NCBI/ICGC/TCGA.

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Hello louis-gil ,

Thanks!

fin swimmer

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3.8 years ago

Search for them on GEO, which links you to where you can download them on SRA. In the GEO results, find the accession IDs you need (e.g. SRPxxxxx for an SRA Project), and then you can choose individual runs (SRRxxxxxx) that are relevant from the projects. Most should be available to download them from SRA with no special access ( e.g. you can download the .sra files and extract the reads using fastq-dump.)

Still, there seems to be a few relevant datasets. Open them up and see what makes sense. You can probably make the search more specific (e.g. specify which organism for germline instead of all the keyword in one go like I did.)