Exom target read depth of TCGA WES data?

Question

[Feng Xie]

Hi,

I'am working on a project with some TCGA samples and I need to know the the read depth of WES data of these samples. Could some one tell me the average or approximately depth of Tumor/Normal TCGA WES data?

Thank you very much.

[Titus]

Hi ,

May be a newbie question but what is TCGA samples ?

[Feng Xie]

Hi Titus, TCGA (The Cancer Genome Atlas) is a public data base which stores lots of cancer genomics data, and here is a link of TCGA, https://cancergenome.nih.gov.

I'm analysesing some data generated by TCGA, and the depth information is important for our downstream analysis.

[Titus]

Thank you for the answer :)

Then your question is strange for me if you are analysing sequencing data and you don't know the depth information :) By the way i m working on cancer data and to find variation we need 500X to find genomic variation if it helps.