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TCGA raw RNA-Seq data

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

rna-seq tcga
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updated by ATpoint ATpoint • written by qwzhang0601 qwzhang0601

1 answer

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.

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written by ATpoint ATpoint

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

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written by qwzhang0601 qwzhang0601

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