How do I compare gene expression between subgroups?
This page assumes you have a column on screen that has the groups you would like to compare (such as 'sample type' for comparing tumor vs normal') or have already made subgroups (such as 'has mutations in EGFR' vs 'does not have mutations in EGFR'). If you need help making subgroups, please see the 'How do I make subgroups' help page.
1.
First, make sure that the gene or genes that you want to compare across your groups are on screen.
2.
Click on the charts icon in the top right and choose 'Compare subgroups'.
3.
Click the dropdown for 'Show data from' and choose your gene expression column.
4.
Click the dropdown for 'Subgroup samples by' and choose your subgroup column.
5.
Choose if you would like a box plot or violin plot and click 'Done'.
Example
Below we examine patient's samples that have aberrations in EGFR in the TCGA Lung Adenocarcinoma study. We will investigate if patient's samples that have aberrations in EGFR (mutations or copy number amplifications) have higher expression.