TCGA raw RNA-Seq data

Question

[qwzhang0601]

I want to make use of RNA-Seq data of TCGA samples to measure expression of transposes of lung cancer samples, so I would need the raw RNA-Seq data. I know TCGA moved to GDC. I wonder how can I get the data? Briefly, I want to cluster sub-types of those lung cancer samples, and check how many samples have raw RNA-Seq data available for each sub-type. Then for those sub-types with enough samples I want to get their raw RNA-Seq data.

Thanks

Answer 1

[ATpoint]

This is all described here https://gdc.cancer.gov/access-data

For raw data you probably have to submit an application, this is fairly common for access to primary human data.

[qwzhang0601]

Thank you. Do you know how/where can I check all TCGA lung cancer samples to get their information (e.g., sub-type, availability of RNA-Seq, mutation data, etc)? Since there will be more than hundreds of samples, I want to know some computational tools to get such information, or where to find such summary data in an integrated table.

Thanks