Question: How to get RNA-Seq raw counts of primary tumor samples from TCGA patients with a certain gene mutated?
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gravatar for dagsbio
18 months ago by
dagsbio20
dagsbio20 wrote:

Dear all,

I am struggling to find an easy way to get RNA-Seq raw counts of primary tumor samples from TCGA patients with a certain gene mutated.

I have tried few R scripts posted in biostars but I haven't figured out the way to adress this question, besides when trying to go through https://portal.gdc.cancer.gov/ I always end up downloading blood derived normals too that then I need to filter out one by one as I haven't found a "bioinformatic" way to do it yet...any suggestions?

Thank you!

expression tcga data rnaseq • 558 views
ADD COMMENTlink modified 18 months ago • written 18 months ago by dagsbio20
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gravatar for dagsbio
18 months ago by
dagsbio20
dagsbio20 wrote:

Just found an easy way to get rid of non-tumor samples here: TCGA BRCA Solid Tissue Normal Filter

ADD COMMENTlink written 18 months ago by dagsbio20
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