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TCGA TMB: What exome size to use?

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!

wes
• 3,359 views • link
updated by bastien.nguyen • bastien.nguyen • written by ngs_engineer • ngs_engineer

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

• 0 views • link
written by always_learning always_learning

1 answer

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

• 0 views • link
written by bastien.nguyen • bastien.nguyen

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

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written by MatthewP MatthewP

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