TCGA TMB: What exome size to use?

Question

[ngs_engineer]

Hi everyone,

I am looking to calculate TMB for TCGA WES data and wonder what exome size should i use or if there is a way to get this information from TCGA.

Thanks!

[always_learning]

Did you get answer to your question? I have been trying to get this answer but so far didn't able to found that.

Answer 1

[bastien.nguyen]

Hi,

You can find TMB data from this paper in the following file; mutation-load-updated.txt

https://gdc.cancer.gov/about-data/publications/PanCan-CellOfOrigin

Best

[MatthewP]

Hello, mutation-load-updated.txt is log10 scale data? If I want TMP data do I need too sum silent and non-silent together?