Entering edit mode
8 hours ago
Jaber
▴
30
Greetings BioStars,
I recently came across a study that utilized the TCGA-LIHC dataset in their pipeline, including data from 50 normal liver patients. I’m curious about how they obtained such a large number of normal samples, as I couldn’t find them through GDC or TCGA-Biolinks.
Aside from GEO, are there other reliable sources where normal samples for bulk RNA-seq can be accessed?
I appreciate your help!
Normal samples may still require approval for access due to privacy concerns, especially if you are looking to get the original sequence data.
You can use TCGA-Biolinks to download the normal samples (final files, not the raw data) from TCGA, I do not know why it is not working for you.
GTeX is another resource to download normal data. It has only the normal samples.
https://gtexportal.org/home/