How to combine expression and mutations data of patients?

Question

[raphael.hablesreiter]

Dear all, is there a method to combine and analyse expression data and mutation data with respect to the survival of patients? Our goal is to find a subpopulation of our cohort that either lives longer or shorter than the rest of the patients. Thanks in advance. Cheers, Raphael

Answer 1

[Kevin Blighe]

You could stratify patients by mutation status, and then do survival separately for Mutation and WT. In each survival analysis, you could test High|Mid|Low expression.

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Alternatively, you could have, as your survival formula:

Surv(Days, PFS) ~ CXCL12:MutationStatus

[PFS = progression free survival]

In the case where you encode your gene's expression, CXCL12, as High|Mid|Low expression, and where MutationStatus is Mutation or WT, 6 curves / lines will be drawn on the resulting plot.

Take a look at what I do here for an idea: Survival analysis with gene expression

Kevin