Question: tumor heterogeneity target capture
gravatar for cristinam09
5.3 years ago by
United States
cristinam0920 wrote:

I would like to use target NGS data, covering about 150 genes at ~500X, to estimate tumor heterogeneity using tools like sciClone. I  know people usually use WGS or WES data. Does anybody knows if sequencing of a smaller panel pose any issue? I would not think so but I am interested to hear what are the thoughts of this community. Thank you for your comments.

ADD COMMENTlink modified 5.1 years ago by Biostar ♦♦ 20 • written 5.3 years ago by cristinam0920

Won't how well this works depend entirely on the genes that you intend to look at? I imagine it'd be difficult to predict how well this'll work without knowing that.

ADD REPLYlink written 5.3 years ago by Devon Ryan91k

You'll need to have enough variants to capture the heterogeneity.  With 150 genes, I suspect that you will not unless your experimental system is quite unusual.  

ADD REPLYlink written 5.1 years ago by Sean Davis25k
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