Survival analysis based on gene signature
Hi all
Does anyone have any advice on how to create a KM plot (in R) based on the expression of a set of genes (hi vs low)?
I am able to test the genes individually (and generate survival curves for each gene) but would like to assess whether the signature has a prognostic effect in the TCGA datasets.
Any help is much appreciated - thank you!
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In such cases, I would suggest first doing a single-sample gene set enrichment analysis (like GSVA, ssGSEA) and then doing a survival analysis based on scores from interested pathways.
Great idea. I will give this a try. Thank you!
The Cox regression is an option for multivariate survival analysis
I will try Cox regression with single sample enrichment scores as a continuous variable as per suggestions. Thank you!