Creating a KM Plot of High and Low Expression
When running a KM plot on a column with continuous data (like gene expression or age), Xena creates 3 relatively equally sized groups by default. But what if you want two groups instead? This page shows you how to do this.
This example will follow ESR1 expression in TCGA Breast Cancer, where we will define high expression as expression greater than the mean and low expression as expression less than the mean.
First we view ESR1 RNAseq expression for the TCGA Breast Cancer Cohort. Next we enter 'A:>0' into the highlighting search bar (see below).
Next, click on the caret menu next to the funnel and choose 'Sort'. This will create a new column where everything that was highlighted (i.e. everything above the mean) is in one group and everything that was not highlighted (i.e. everything below the mean) is in another group.
Finally, run the KM plot on the new 'sort' column.