text: user4665: I want to play some differentially expressed genes for gliomas cancer. I collected cancer tissue profiles from the TCGA database and normal tissue profiles from the GTEx database. I straightforward use ComBat from R package "sva", and the result shows little differentially expressed genes (DEGs) were found. How can I remove batch effects correctly?
  Thanks
  
  user35: There is a paper that did what you are asking: Unifying cancer and normal RNA sequencing data from different sources.
  
original_text: 4665: <p>I want to play some differentially expressed genes for gliomas cancer. I collected cancer tissue profiles from the TCGA database and normal tissue profiles from the GTEx database. I straightforward use ComBat from R package &quot;sva&quot;, and the result shows little differentially expressed genes (DEGs) were found. How can I remove batch effects correctly?</p>
  <p>Thanks</p>
   35: <p>There is a paper that did what you are asking: <a href="https://www.nature.com/articles/sdata201861" rel="nofollow noreferrer">Unifying cancer and normal RNA sequencing data from different sources</a>.</p>
  