We have RNA seq
transcripts per million(TPM) values for all genes in a tumor patient sample.
However there was no sequencing done for normal samples from the same patient. We want to determine which genes are being over/under expressed in the tumor and having just its expression values is obviously not much informative.
Is there a resource or method that I can use to reasonably compare the tumor expression values with normal ones from a public resource for the same tissue?
I have tried to get median TPM values for the tissue from
GTEx however though the TPM values are mildly correlated it seems unreliable to make any statement on the basis of this. I looked for the values for some house keeping genes mentioned in this publication but they are fairly different between the tumor and GTEx median.