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 326
6
Diseases
12
Unique genes
0.192
Avg. similarity score
Coronary artery vasospasm
Most-connected disease (5 links)
Disease
Pinned (dragged)
Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
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Coronary artery vasospasm
Coronary vasospasm
Intestinal perforation
Resistant hypertension
Ventricular ectopy
Capillary leak syndrome
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Coronary artery vasospasm | 5 | 5 | 3 |
| Coronary vasospasm | 5 | 5 | 4 |
| Intestinal perforation | 4 | 4 | 3 |
| Resistant hypertension | 4 | 4 | 3 |
| Ventricular ectopy | 4 | 4 | 4 |
| Capillary leak syndrome | 2 | 2 | 2 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| NOS3 | 5 / 6 | Coronary artery vasospasm, Coronary vasospasm, Intestinal perforation, Resistant hypertension and 1 more |
| PON1 | 3 / 6 | Capillary leak syndrome, Coronary artery vasospasm, Coronary vasospasm |
| ARHGAP9 | 2 / 6 | Coronary artery vasospasm, Coronary vasospasm |
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 ⇵ |
|---|---|---|---|---|---|
| Nitric oxide stimulates guanylate cyclase | Reactome | 2 / 3 | 667× | 2.74e-6 | 1.15e-4 ✓ sig. |
| Arginine biosynthesis | KEGG | 2 / 23 | 87.0× | 2.29e-4 | 4.35e-3 ✓ sig. |
| ROS and RNS production in phagocytes | Reactome | 2 / 34 | 58.9× | 5.04e-4 | 8.01e-3 ✓ sig. |
| Arginine and proline metabolism | KEGG | 2 / 50 | 40.0× | 1.09e-3 | 1.45e-2 ✓ sig. |
| NOSIP mediated eNOS trafficking | Reactome | 1 / 2 | 500× | 2.00e-3 | 2.28e-2 ✓ sig. |
| NOSTRIN mediated eNOS trafficking | Reactome | 1 / 5 | 200× | 4.99e-3 | 4.37e-2 ✓ sig. |
| Synthesis of 5-eicosatetraenoic acids | Reactome | 1 / 6 | 167× | 5.98e-3 | 4.92e-2 ✓ sig. |
| Platelet activation | KEGG | 2 / 126 | 15.9× | 6.73e-3 | 5.32e-2 |
| Phase 1 - inactivation of fast Na+ channels | Reactome | 1 / 7 | 143× | 6.97e-3 | 5.45e-2 |
| Relaxin signaling pathway | KEGG | 2 / 130 | 15.4× | 7.15e-3 | 5.54e-2 |
| Apelin signaling pathway | KEGG | 2 / 140 | 14.3× | 8.25e-3 | 6.09e-2 |
| Ca2+ activated K+ channels | Reactome | 1 / 9 | 111× | 8.96e-3 | 6.42e-2 |
| SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion | Reactome | 1 / 10 | 100× | 9.95e-3 | 6.82e-2 |
| Tetrahydrobiopterin (BH4) synthesis, recycling, salvage and regulation | Reactome | 1 / 11 | 91.0× | 1.09e-2 | 7.25e-2 |
| cGMP-PKG signaling pathway | KEGG | 2 / 166 | 12.1× | 1.14e-2 | 7.44e-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 ⇵ |
|---|---|---|---|---|---|
| potassium ion transport | GO:0006813 | 4 / 152 | 41.0× | 1.98e-6 | 1.43e-4 ✓ sig. |
| L-arginine catabolic process | GO:0006527 | 2 / 6 | 519× | 5.66e-6 | 3.31e-4 ✓ sig. |
| negative regulation of potassium ion transport | GO:0043267 | 2 / 8 | 389× | 1.06e-5 | 5.43e-4 ✓ sig. |
| negative regulation of calcium ion transport | GO:0051926 | 2 / 10 | 311× | 1.70e-5 | 7.89e-4 ✓ sig. |
| nitric oxide mediated signal transduction | GO:0007263 | 2 / 13 | 240× | 2.94e-5 | 1.20e-3 ✓ sig. |
| regulation of sodium ion transport | GO:0002028 | 2 / 19 | 164× | 6.43e-5 | 2.17e-3 ✓ sig. |
| nitric oxide biosynthetic process | GO:0006809 | 2 / 23 | 135× | 9.49e-5 | 2.91e-3 ✓ sig. |
| negative regulation of blood pressure | GO:0045776 | 2 / 28 | 111× | 1.42e-4 | 3.92e-3 ✓ sig. |
| blood circulation | GO:0008015 | 2 / 41 | 76.0× | 3.06e-4 | 6.81e-3 ✓ sig. |
| response to heat | GO:0009408 | 2 / 41 | 76.0× | 3.06e-4 | 6.81e-3 ✓ sig. |
| cell redox homeostasis | GO:0045454 | 2 / 44 | 70.8× | 3.52e-4 | 7.48e-3 ✓ sig. |
| vasodilation | GO:0042311 | 2 / 50 | 62.3× | 4.55e-4 | 8.97e-3 ✓ sig. |
| response to hormone | GO:0009725 | 2 / 55 | 56.6× | 5.51e-4 | 1.02e-2 ✓ sig. |
| synaptic signaling by nitric oxide | GO:0099163 | 1 / 1 | 1,557× | 6.42e-4 | 1.13e-2 ✓ sig. |
| positive regulation of sodium ion transmembrane transport | GO:1902307 | 1 / 1 | 1,557× | 6.42e-4 | 1.13e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Coronary artery vasospasm | Coronary vasospasm | 0.600 | 3 | 6.58e-12 | 7.74e-11 ✓ sig. |
| Capillary leak syndrome | Coronary artery vasospasm | 0.200 | 1 | 3.90e-4 | 8.52e-4 ✓ sig. |
| Capillary leak syndrome | Coronary vasospasm | 0.167 | 1 | 5.19e-4 | 1.04e-3 ✓ sig. |
| Coronary artery vasospasm | Resistant hypertension | 0.167 | 1 | 5.84e-4 | 1.14e-3 ✓ sig. |
| Coronary artery vasospasm | Intestinal perforation | 0.167 | 1 | 5.84e-4 | 1.14e-3 ✓ sig. |
| Intestinal perforation | Resistant hypertension | 0.167 | 1 | 5.84e-4 | 1.14e-3 ✓ sig. |
| Coronary vasospasm | Resistant hypertension | 0.143 | 1 | 7.79e-4 | 1.39e-3 ✓ sig. |
| Coronary vasospasm | Intestinal perforation | 0.143 | 1 | 7.79e-4 | 1.39e-3 ✓ sig. |
| Resistant hypertension | Ventricular ectopy | 0.143 | 1 | 7.79e-4 | 1.39e-3 ✓ sig. |
| Coronary artery vasospasm | Ventricular ectopy | 0.143 | 1 | 7.79e-4 | 1.39e-3 ✓ sig. |
| Intestinal perforation | Ventricular ectopy | 0.143 | 1 | 7.79e-4 | 1.39e-3 ✓ sig. |
| Coronary vasospasm | Ventricular ectopy | 0.125 | 1 | 1.04e-3 | 1.72e-3 ✓ sig. |