Disease Clusters?

Groups of diseases that share a large number of curated genes with each other, computed via label propagation over the shared-gene similarity graph. See also Shared-Gene Disease Pairs for pairwise comparisons.

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Cluster 371

5 diseases · 10 shared-gene connections
5 Diseases
2 Unique genes
0.433 Avg. similarity score
Aldosterone-producing adenoma Most-connected disease (4 links)
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Disease Searched: Aldosterone-producing adenoma Pinned (dragged)
Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details · click a node to select it and show its pairs below (double-click or Ctrl/⌘-click opens the disease page) · drag a node to pin it in place · scroll/pinch to zoom.

Member diseases (most connected first ‐ the cluster's core)

Disease ⇵ Connections in cluster ⇵ Significant partners ⇵ Curated genes ⇵
Aldosterone-producing adenoma 4 4 1
Brain compression 4 4 2
Breast cyst 4 4 1
Primary hyperaldosteronism-seizures-neurological abnormalities syndrome 4 4 1
sinoatrial node dysfunction and deafness 4 4 1

Top shared genes (genes linked to 2+ member diseases)

Gene ⇵ Member diseases ⇵ Linked diseases
CACNA1D 5 / 5 Aldosterone-producing adenoma, Brain compression, Breast cyst, Primary hyperaldosteronism-seizures-neurological abnormalities syndrome and 1 more
What do these columns mean?
Connections in cluster
How many other members this disease has a shared-gene link to (the node size in the network above). The most-connected diseases are the cluster's core.
Significant partners
How many of those links are statistically significant (FDR q < 0.05).
Curated genes
Distinct curated genes linked to that disease in GeDiPNet.
Member diseases (Top shared genes)
How many of this cluster's diseases are linked to the gene, out of the cluster's total. Genes shared by many members are the most direct explanation of why they group together.
Overlap genes (x / y)
x = genes shared between this cluster and the pathway/GO term; y = that pathway/GO term's total gene count. A higher x relative to y (and to the cluster's own size) means a tighter biological match.
Cluster gene count
Total distinct genes across every disease in this cluster -- the "n" used in the significance test below.
Fold enrichment
Observed overlap divided by the overlap expected by chance, given the cluster's gene count, the pathway/term's size and the gene universe tested. 5× means five times more shared genes than random. Tells strong hits apart when q-values are all vanishingly small.
P-value / FDR q-value
Is this pathway/GO term's overlap with the cluster more than chance? Upper-tail hypergeometric test, Benjamini-Hochberg corrected across every tested pathway/term (prefer the q-value -- it accounts for testing many at once).
Shared genes (Pairs within this cluster)
Number of curated genes the two diseases in that row have in common.
Similarity score (Pairs within this cluster)
Jaccard-based gene overlap between the two specific diseases in that row -- same metric as the main Shared-Gene Disease Pairs page.

Enriched Pathways (why this cluster is grouped, biologically)

Pathway ⇵ Source ⇵ Overlap genes ⇵ Fold enrichment ⇵ P-value ⇵ FDR q-value ⇵
Arrhythmogenic right ventricular cardiomyopathy
CACNA1D, CTNNA3
 KEGG 2 / 86 140× 5.07e-5 1.31e-3 ✓ sig.
Regulation of insulin secretion
CACNA1D
 Reactome 1 / 16 375× 2.66e-3 2.88e-2 ✓ sig.
Phase 2 - plateau phase
CACNA1D
 Reactome 1 / 25 240× 4.16e-3 3.93e-2 ✓ sig.
Phase 0 - rapid depolarisation
CACNA1D
 Reactome 1 / 44 136× 7.31e-3 5.74e-2
Type II diabetes mellitus
CACNA1D
 KEGG 1 / 47 128× 7.81e-3 5.99e-2
Carbohydrate digestion and absorption
CACNA1D
 KEGG 1 / 48 125× 7.98e-3 6.07e-2
Endometrial cancer
CTNNA3
 KEGG 1 / 59 102× 9.80e-3 6.92e-2
Cortisol synthesis and secretion
CACNA1D
 KEGG 1 / 65 92.4× 1.08e-2 7.35e-2
GnRH secretion
CACNA1D
 KEGG 1 / 65 92.4× 1.08e-2 7.35e-2
Renin secretion
CACNA1D
 KEGG 1 / 69 87.0× 1.15e-2 7.60e-2
Amphetamine addiction
CACNA1D
 KEGG 1 / 69 87.0× 1.15e-2 7.60e-2
Bacterial invasion of epithelial cells
CTNNA3
 KEGG 1 / 78 77.0× 1.29e-2 8.19e-2
Insulin secretion
CACNA1D
 KEGG 1 / 86 69.8× 1.43e-2 8.68e-2
Cardiac muscle contraction
CACNA1D
 KEGG 1 / 87 69.0× 1.44e-2 8.75e-2
GABAergic synapse
CACNA1D
 KEGG 1 / 89 67.5× 1.48e-2 8.88e-2

Enriched GO Terms (Biological Process, a second line of biological evidence)

GO term ⇵ GO ID ⇵ Overlap genes ⇵ Fold enrichment ⇵ P-value ⇵ FDR q-value ⇵
regulation of heart rate by cardiac conduction
CACNA1D, CTNNA3
 GO:0086091 2 / 43 435× 5.17e-6 3.14e-4 ✓ sig.
regulation of metal ion transport
CACNA1D
 GO:0010959 1 / 5 1,869× 5.35e-4 1.02e-2 ✓ sig.
positive regulation of adenylate cyclase activity
CACNA1D
 GO:0045762 1 / 5 1,869× 5.35e-4 1.02e-2 ✓ sig.
membrane depolarization during SA node cell action potential
CACNA1D
 GO:0086046 1 / 5 1,869× 5.35e-4 1.02e-2 ✓ sig.
regulation of atrial cardiac muscle cell membrane repolarization
CACNA1D
 GO:0060372 1 / 6 1,557× 6.42e-4 1.15e-2 ✓ sig.
bundle of His cell-Purkinje myocyte adhesion involved in cell communication
CTNNA3
 GO:0086073 1 / 6 1,557× 6.42e-4 1.15e-2 ✓ sig.
positive regulation of transport
CACNA1D
 GO:0051050 1 / 9 1,038× 9.63e-4 1.50e-2 ✓ sig.
regulation of ventricular cardiac muscle cell action potential
CTNNA3
 GO:0098911 1 / 11 849× 1.18e-3 1.70e-2 ✓ sig.
membrane depolarization during cardiac muscle cell action potential
CACNA1D
 GO:0086012 1 / 12 779× 1.28e-3 1.79e-2 ✓ sig.
calcium ion import
CACNA1D
 GO:0070509 1 / 21 445× 2.25e-3 2.48e-2 ✓ sig.
cardiac muscle cell action potential involved in contraction
CACNA1D
 GO:0086002 1 / 24 389× 2.57e-3 2.66e-2 ✓ sig.
positive regulation of calcium ion transport
CACNA1D
 GO:0051928 1 / 27 346× 2.89e-3 2.82e-2 ✓ sig.
regulation of potassium ion transmembrane transport
CACNA1D
 GO:1901379 1 / 28 334× 2.99e-3 2.88e-2 ✓ sig.
calcium ion import across plasma membrane
CACNA1D
 GO:0098703 1 / 28 334× 2.99e-3 2.88e-2 ✓ sig.
signaling
CACNA1D
 GO:0023052 1 / 42 222× 4.49e-3 3.54e-2 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Aldosterone-producing adenoma Breast cyst 0.500 1 6.49e-5 2.32e-4 ✓ sig.
Aldosterone-producing adenoma Primary hyperaldosteronism-seizures-neurological abnormalities syndrome 0.500 1 6.49e-5 2.32e-4 ✓ sig.
Aldosterone-producing adenoma sinoatrial node dysfunction and deafness 0.500 1 6.49e-5 2.32e-4 ✓ sig.
Breast cyst Primary hyperaldosteronism-seizures-neurological abnormalities syndrome 0.500 1 6.49e-5 2.32e-4 ✓ sig.
Breast cyst sinoatrial node dysfunction and deafness 0.500 1 6.49e-5 2.32e-4 ✓ sig.
Primary hyperaldosteronism-seizures-neurological abnormalities syndrome sinoatrial node dysfunction and deafness 0.500 1 6.49e-5 2.32e-4 ✓ sig.
Aldosterone-producing adenoma Brain compression 0.333 1 1.30e-4 3.91e-4 ✓ sig.
Brain compression Breast cyst 0.333 1 1.30e-4 3.91e-4 ✓ sig.
Brain compression Primary hyperaldosteronism-seizures-neurological abnormalities syndrome 0.333 1 1.30e-4 3.91e-4 ✓ sig.
Brain compression sinoatrial node dysfunction and deafness 0.333 1 1.30e-4 3.91e-4 ✓ sig.