Question: How to determine subtype-specific mutations?
0
gravatar for sugus
12 months ago by
sugus50
China Pharmaceutical University
sugus50 wrote:

Hi there,

We all know that given a profiling of gene expression data and two, maybe more, groups or subtypes, we could derive differentially expressed genes between these groups.

However, how to determine this kind of differential mutations or SNPs between groups by any stat-of-the-art methods.

To my knowledge, the popularly used algorithms like MutSigCV, MutSiC, they determined the cancer drivers among all the samples with a specific cancer. I am not sure if I performed MutSigCV twice for two subtypes separately, and compared the results means anything correct.

Thus, does anyone have better ideas about this issue, i.e., how to find 'robust' differentially mutated genes, or driver mutations between subtypes by whole exome sequencing.

Many thanks advanced!

ADD COMMENTlink modified 12 months ago • written 12 months ago by sugus50

Sounds like a classic association study?

ADD REPLYlink written 12 months ago by WouterDeCoster44k

Maybe, thanks for reminding.

ADD REPLYlink written 11 months ago by sugus50
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