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.
← Back to all clusters
Cluster 412
5
Diseases
5
Unique genes
0.310
Avg. similarity score
Hemiplegic migraine
Most-connected disease (4 links)
Disease
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.
Hemiplegic migraine
Beta-propeller protein-associated neurodegeneration
X-linked cerebral cerebellar coloboma syndrome
X-linked optic atrophy
familial hemiplegic migraine
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Hemiplegic migraine | 4 | 4 | 5 |
| Beta-propeller protein-associated neurodegeneration | 3 | 3 | 1 |
| X-linked cerebral cerebellar coloboma syndrome | 3 | 3 | 1 |
| X-linked optic atrophy | 3 | 3 | 1 |
| familial hemiplegic migraine | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| WDR45 | 4 / 5 | Beta-propeller protein-associated neurodegeneration, Hemiplegic migraine, X-linked cerebral cerebellar coloboma syndrome, X-linked optic atrophy |
| SCN1A | 2 / 5 | familial hemiplegic migraine, Hemiplegic migraine |
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 ⇵ |
|---|---|---|---|---|---|
| Dopaminergic synapse | KEGG | 2 / 132 | 36.4× | 1.17e-3 | 1.53e-2 ✓ sig. |
| Presynaptic depolarization and calcium channel opening | Reactome | 1 / 12 | 200× | 4.99e-3 | 4.37e-2 ✓ sig. |
| Regulation of insulin secretion | Reactome | 1 / 16 | 150× | 6.64e-3 | 5.28e-2 |
| Proximal tubule bicarbonate reclamation | KEGG | 1 / 23 | 104× | 9.54e-3 | 6.67e-2 |
| Aldosterone-regulated sodium reabsorption | KEGG | 1 / 38 | 63.2× | 1.57e-2 | 8.96e-2 |
| Nicotine addiction | KEGG | 1 / 41 | 58.6× | 1.70e-2 | 9.40e-2 |
| Phase 0 - rapid depolarisation | Reactome | 1 / 44 | 54.6× | 1.82e-2 | 9.77e-2 |
| Type II diabetes mellitus | KEGG | 1 / 47 | 51.1× | 1.94e-2 | 1.01e-1 |
| Carbohydrate digestion and absorption | KEGG | 1 / 48 | 50.0× | 1.98e-2 | 1.02e-1 |
| Endocrine and other factor-regulated calcium reabsorption | KEGG | 1 / 53 | 45.3× | 2.19e-2 | 1.08e-1 |
| Ion homeostasis | Reactome | 1 / 54 | 44.5× | 2.23e-2 | 1.09e-1 |
| Ion transport by P-type ATPases | Reactome | 1 / 56 | 42.9× | 2.31e-2 | 1.12e-1 |
| Long-term depression | KEGG | 1 / 60 | 40.0× | 2.47e-2 | 1.16e-1 |
| Mineral absorption | KEGG | 1 / 61 | 39.4× | 2.51e-2 | 1.17e-1 |
| Macroautophagy | Reactome | 1 / 68 | 35.3× | 2.80e-2 | 1.24e-1 |
Enriched GO Terms (Biological Process, a second line of biological evidence)
| GO term ⇵ | GO ID ⇵ | Overlap genes ⇵ | Fold enrichment ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| neuronal action potential propagation | GO:0019227 | 2 / 11 | 680× | 3.15e-6 | 2.07e-4 ✓ sig. |
| neuromuscular process controlling posture | GO:0050884 | 2 / 15 | 498× | 6.01e-6 | 3.47e-4 ✓ sig. |
| olfactory cortex development | GO:0021989 | 1 / 1 | 3,737× | 2.68e-4 | 6.20e-3 ✓ sig. |
| negative regulation of short-term synaptic potentiation | GO:1905513 | 1 / 1 | 3,737× | 2.68e-4 | 6.20e-3 ✓ sig. |
| monoatomic ion transport | GO:0006811 | 3 / 667 | 16.8× | 4.29e-4 | 8.60e-3 ✓ sig. |
| sodium ion transmembrane transport | GO:0035725 | 2 / 134 | 55.8× | 5.03e-4 | 9.62e-3 ✓ sig. |
| regulation of glutamate uptake involved in transmission of nerve impulse | GO:0051946 | 1 / 2 | 1,869× | 5.35e-4 | 9.98e-3 ✓ sig. |
| regulation of calcium-dependent activation of synaptic vesicle fusion | GO:0150037 | 1 / 2 | 1,869× | 5.35e-4 | 9.98e-3 ✓ sig. |
| negative regulation of SNARE complex assembly | GO:0035544 | 1 / 2 | 1,869× | 5.35e-4 | 9.98e-3 ✓ sig. |
| sodium ion transport | GO:0006814 | 2 / 144 | 51.9× | 5.81e-4 | 1.06e-2 ✓ sig. |
| negative regulation of striated muscle contraction | GO:0045988 | 1 / 3 | 1,246× | 8.03e-4 | 1.30e-2 ✓ sig. |
| negative regulation of calcium ion transmembrane transport | GO:1903170 | 1 / 3 | 1,246× | 8.03e-4 | 1.30e-2 ✓ sig. |
| amygdala development | GO:0021764 | 1 / 4 | 934× | 1.07e-3 | 1.57e-2 ✓ sig. |
| nucleophagy | GO:0044804 | 1 / 5 | 747× | 1.34e-3 | 1.79e-2 ✓ sig. |
| negative regulation of heart contraction | GO:0045822 | 1 / 6 | 623× | 1.60e-3 | 1.98e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Beta-propeller protein-associated neurodegeneration | X-linked optic atrophy | 0.500 | 1 | 6.49e-5 | 2.34e-4 ✓ sig. |
| Beta-propeller protein-associated neurodegeneration | X-linked cerebral cerebellar coloboma syndrome | 0.500 | 1 | 6.49e-5 | 2.34e-4 ✓ sig. |
| X-linked cerebral cerebellar coloboma syndrome | X-linked optic atrophy | 0.500 | 1 | 6.49e-5 | 2.34e-4 ✓ sig. |
| Beta-propeller protein-associated neurodegeneration | Hemiplegic migraine | 0.167 | 1 | 3.25e-4 | 7.58e-4 ✓ sig. |
| familial hemiplegic migraine | Hemiplegic migraine | 0.167 | 1 | 3.25e-4 | 7.58e-4 ✓ sig. |
| Hemiplegic migraine | X-linked cerebral cerebellar coloboma syndrome | 0.167 | 1 | 3.25e-4 | 7.58e-4 ✓ sig. |
| Hemiplegic migraine | X-linked optic atrophy | 0.167 | 1 | 3.25e-4 | 7.58e-4 ✓ sig. |