Hi everyone,

I'm working with gene expression data from cBioPortal and noticed that for mRNA expression there are different formats available, such as RSEM values and z-scores (e.g., relative to all samples or normal samples).

In general, when comparing gene expression across groups (e.g., different tumor subtypes) and exploring potential clinical associations, would you recommend using RSEM values or z-scores?

I'm particularly interested in understanding the trade-offs between these formats in downstream analyses.

Thanks in advance!