<p>Hi all,</p>

<p>I am not understanding how to download a full matrix of a TCGA subset (e.g. Colon Adenocarcinoma).</p>

<p>I selected Download Data &gt; Data matrix &gt; COAD Data matrix but I am getting a lot of files (level 3).</p>

<p>I want only the matrix of genes x samples. Have I to assemble it or can I download it somewhere?</p>

<p>Thanks</p>

Hi,

you were searching at the right place. Indeed you will find plenty of txt files when you select "RNA-Seq" in the data matrix. There are gene expression files for each individual seperately. In your case, i assume you want the files endlich with "gene.quantification.txt" as the contain gene and RPKM.

Another possibility would be https://genome-cancer.ucsc.edu/proj/site/hgHeatmap/. Select your tumor and analysis type of interest (Buton "Add datasets") and on the left side (mouse over) you will find a symbol which downloads the data.

I hope that helps,

Sebastian