Gene Set Plot
Input
Help
About Us
Welcome to Gene Set Plot
A Gene Set Enrichment Analysis (GSEA) visualization tool.
Select Gene Set Dataset:
Human (MSigDB)
Mouse (MSigDB)
Upload your own
Upload a custom gene set JSON file
Manual Gene Input
Thresholded Input
Single List Input
Significant Genes:
Clear
Insignificant Genes:
Clear
Enter Gene List:
Clear
Select Gene Set Collection(s):
Enter the minimum relevant members for each gene set:
Info 1: Loading...
Info 2: Loading...
Graph Settings
Point Color
Least Significant:
Most Significant:
Selected:
P-Value Range
Maximum:
Minimum:
Point Size
Fixed:
Dynamic:
Size:
Scalar:
Display Genes
Show significant genes only
Choose Algorithm:
UMAP
t-SNE
Isomap
UMAP Settings
Number of Neighbors:
Minimum Distance:
Random State (seed):
Set to 0 or leave empty for random initialization.
t-SNE Settings
Perplexity:
Balance between local and global structure (5-50 typically).
Early Exaggeration:
Controls space between clusters during optimization.
Max Iterations:
Maximum optimization steps.
Isomap Settings
Number of Neighbors:
Number of neighbors to consider for graph construction.
Additional Settings
Distance Metric:
Overlap Coeff
Jaccard Distance
Plain:
Weighted:
Plain:
Weighted:
Threshold
P-Value
or
FDR
Clear Selected
Apply
Toggle Labels
Settings saved! Click Submit to update the graph.
Selected Points:
Submit