DriverDBv4 provides several interactive network views. Below is a brief guide to each.

(a) Cancer Summary Network

What it shows:
Relationships between driver genes, functional categories (e.g., mutation, methylation), and optional interaction layers (PPI, synergistic effects).

How to use:

1. Reset layout: click the reset button to restore the original network arrangement.
2. Choose gene set: toggle between CGC, NCG6.0 and All to select which driver catalog to view.
3. Select functional category: for example, turn on “Methylation drivers” to highlight driver genes associated with DNA methylation in the chosen cancer type.
4. Add interaction layers:
   • PPI: show protein–protein interactions.
   • Synergistic effect: show synergistic relationships between driver genes and miRNA.
     Interactions are drawn as gray edges between nodes.
5. Click “Submit” to update the network.

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(b) Cancer Survival Synergy Network / Gene Survival Synergy Network

What it shows:
Relationships between genes (or gene pairs) and survival, based on hazard ratios.

How to use:

1. Reset the network layout if needed.
2. Choose CGC/ NCG6.0 / All to define the gene set.
3. Select the fold difference of hazard ratio you want to focus on (e.g., strong vs moderate effects).
4. Select the direction of the hazard ratio (whether high or low expression is associated with poor survival).
5. Click “Submit” to apply the filters.

(c) miRNA-Gene Interaction Network

What it shows:
Predicted and validated interactions between driver genes and miRNAs.

How to use:

1. Reset the network layout if needed.
2. Choose CGC/ NCG6.0 / All to define the gene set.
3. Set the minimum number of prediction tools supporting each miRNA–gene interaction (displayed by dashed edges).
4. Choose whether to include validated interactions (shown as solid edges).
5. Click “Submit” to update the network.

Most plots in DriverDBv4 are interactive. You can:

Select / hide sample types

• Click items in the legend (e.g., sample type) to hide or show those samples.
• Clicking again toggles them back on.

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Use the figure toolbar
When you move the mouse over a figure, a toolbar appears (usually at the top of the plot). Common tools:

1. Download – save the current plot as a PNG image.
2. Box zoom – draw a rectangle to zoom into a specific region.
3. Zoom in – stepwise zoom in control.
4. Zoom out – stepwise zoom out control.
5. Reset axes – return to the original view.

These tools let you focus on specific sample subsets or export publication-ready figures.

Note: A 'Download PNG' button located at the bottom right corner of each figure provides higher-resolution images than the standard toolbar download option, making it better suited for publications or presentations.

Mutation

CNV

Methylation

Multi-omics Integration

The Survival interface contains a summary table and a KM plot panel.
Steps:

1. Choose a survival type (OS, PFI, DFI, or DSS) and stratification method (mean or median expression).
2. The summary table will display survival statistics (hazard ratio, p-values, etc.) for each cancer type based on the selected survival type and stratification method.
3. Click a radio button for a row (cancer type) in the table to view the corresponding Kaplan–Meier plots.
4. Both 5-year and all-year KM plots will display below, showing survival curves and numbers at risk for the selected gene, cancer type, survival type, and stratification method.

Use this function to quickly see how the expression of a single gene relates to patient survival across cancer types.