Expression Profile
The Expression Profile module enables exploration of gene expression changes across one or more reference tissues. It provides two views: Genes of Interest (available when a GOI file is configured) and All Genes, each with its own interactive table, filter menu, and volcano plot.
For general information about working with tables (sorting, filtering, column visibility, export, and flagging), see Working with Tables.
The Expression Table
Expression data is displayed with colour-coded rows to highlight deregulated genes at a glance:
-
Red — upregulated genes (
log2FC > 1) -
Blue — downregulated genes (
log2FC < -1) -
Orange — genes with
p-value < 0.05 -
Green — genes with
p-adj < 0.05
When multiple reference tissues are available, each tissue has its own set of log2FC,
p-value, and p-adj columns, grouped under the tissue name.
Filtering
The filter menu provides the following options:
- Tissues — show or hide specific tissue comparisons using toggle buttons. Hidden tissues are removed from the column groups in the table.
- Pathways — filter rows by pathway classification using a searchable dropdown.
-
Tissue values — for each tissue, apply quick preset filters:
log2FC > 1,log2FC < -1,p-value < 0.05, orp-adj < 0.05. Multiple filters for the same tissue are combined with OR logic. - Column visibility — show or hide individual columns.
Volcano Plot
Each module view includes a volcano plot available as a collapsible panel below the table.
The plot shows log2FC on the x-axis and -log10(p-adj) on the y-axis.
You can adjust the plot interactively:
- p-adj cutoff — threshold line on the y-axis (default 0.05)
- log2FC cutoff — threshold lines on the x-axis (default ±1)
- Gene labels — number of top genes to label on the plot (default 0)