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 161
9
Diseases
19
Unique genes
0.196
Avg. similarity score
Genetic peripheral neuropathy
Most-connected disease (5 links)
Disease
Searched: hereditary peripheral neuropathy
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Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
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hereditary peripheral neuropathy
Genetic peripheral neuropathy
Benign fasciculation-cramp syndrome
Cramp-fasciculation syndrome
Overactive bladder
Bronchial hyperreactivity
Charcot-Marie-Tooth disease axonal type 2F
Congenital sensory neuropathy
autosomal dominant slowed nerve conduction velocity
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Genetic peripheral neuropathy | 5 | 5 | 4 |
| Benign fasciculation-cramp syndrome | 4 | 4 | 1 |
| Cramp-fasciculation syndrome | 4 | 4 | 1 |
| Overactive bladder | 4 | 4 | 4 |
| Bronchial hyperreactivity | 3 | 3 | 14 |
| Charcot-Marie-Tooth disease axonal type 2F | 1 | 1 | 1 |
| Congenital sensory neuropathy | 1 | 1 | 1 |
| autosomal dominant slowed nerve conduction velocity | 1 | 1 | 1 |
| hereditary peripheral neuropathy | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| TRPA1 | 5 / 9 | Benign fasciculation-cramp syndrome, Bronchial hyperreactivity, Cramp-fasciculation syndrome, Genetic peripheral neuropathy and 1 more |
| NGF | 3 / 9 | Bronchial hyperreactivity, Congenital sensory neuropathy, Overactive bladder |
| ARHGEF10 | 2 / 9 | autosomal dominant slowed nerve conduction velocity, Genetic peripheral neuropathy |
| HSPB1 | 2 / 9 | Charcot-Marie-Tooth disease axonal type 2F, Genetic peripheral neuropathy |
| IGHMBP2 | 2 / 9 | Genetic peripheral neuropathy, hereditary peripheral neuropathy |
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 ⇵ |
|---|---|---|---|---|---|
| Cytokine-cytokine receptor interaction | KEGG | 7 / 298 | 14.8× | 2.11e-7 | 1.20e-5 ✓ sig. |
| Interleukin-10 signaling | Reactome | 4 / 47 | 53.8× | 7.64e-7 | 3.69e-5 ✓ sig. |
| TNF signaling pathway | KEGG | 4 / 119 | 21.2× | 3.17e-5 | 8.53e-4 ✓ sig. |
| Chemokine receptors bind chemokines | Reactome | 3 / 59 | 32.1× | 1.03e-4 | 2.25e-3 ✓ sig. |
| Neuroactive ligand-receptor interaction | KEGG | 5 / 370 | 8.5× | 2.20e-4 | 4.10e-3 ✓ sig. |
| IL-17 signaling pathway | KEGG | 3 / 94 | 20.2× | 4.11e-4 | 6.77e-3 ✓ sig. |
| Rheumatoid arthritis | KEGG | 3 / 95 | 20.0× | 4.24e-4 | 6.93e-3 ✓ sig. |
| Viral protein interaction with cytokine and cytokine receptor | KEGG | 3 / 100 | 19.0× | 4.93e-4 | 7.79e-3 ✓ sig. |
| AGE-RAGE signaling pathway in diabetic complications | KEGG | 3 / 101 | 18.8× | 5.07e-4 | 7.96e-3 ✓ sig. |
| NF-kappa B signaling pathway | KEGG | 3 / 105 | 18.1× | 5.68e-4 | 8.70e-3 ✓ sig. |
| Interleukin-4 and Interleukin-13 signaling | Reactome | 3 / 108 | 17.6× | 6.17e-4 | 9.28e-3 ✓ sig. |
| ADORA2B mediated anti-inflammatory cytokines production | Reactome | 3 / 128 | 14.8× | 1.01e-3 | 1.35e-2 ✓ sig. |
| Glucagon-type ligand receptors | Reactome | 2 / 33 | 38.3× | 1.22e-3 | 1.56e-2 ✓ sig. |
| G alpha (s) signalling events | Reactome | 3 / 140 | 13.5× | 1.31e-3 | 1.65e-2 ✓ sig. |
| Fluid shear stress and atherosclerosis | KEGG | 3 / 141 | 13.4× | 1.34e-3 | 1.68e-2 ✓ sig. |
Enriched GO Terms (Biological Process, a second line of biological evidence)
| GO term ⇵ | GO ID ⇵ | Overlap genes ⇵ | Fold enrichment ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| antimicrobial humoral immune response mediated by antimicrobial peptide | GO:0061844 | 6 / 124 | 47.6× | 1.91e-9 | 3.96e-7 ✓ sig. |
| sensory perception of pain | GO:0019233 | 4 / 44 | 89.4× | 1.01e-7 | 1.21e-5 ✓ sig. |
| inflammatory response | GO:0006954 | 7 / 467 | 14.7× | 2.26e-7 | 2.40e-5 ✓ sig. |
| antifungal humoral response | GO:0019732 | 3 / 13 | 227× | 2.53e-7 | 2.64e-5 ✓ sig. |
| response to yeast | GO:0001878 | 3 / 16 | 184× | 4.95e-7 | 4.62e-5 ✓ sig. |
| immune response | GO:0006955 | 7 / 543 | 12.7× | 6.26e-7 | 5.63e-5 ✓ sig. |
| regulation of blood pressure | GO:0008217 | 4 / 83 | 47.4× | 1.33e-6 | 1.05e-4 ✓ sig. |
| cell-cell signaling | GO:0007267 | 5 / 234 | 21.0× | 2.97e-6 | 1.99e-4 ✓ sig. |
| positive regulation of cytosolic calcium ion concentration | GO:0007204 | 4 / 137 | 28.7× | 9.84e-6 | 5.19e-4 ✓ sig. |
| body fluid secretion | GO:0007589 | 2 / 7 | 281× | 2.05e-5 | 9.21e-4 ✓ sig. |
| antibacterial humoral response | GO:0019731 | 3 / 65 | 45.4× | 3.74e-5 | 1.45e-3 ✓ sig. |
| cellular response to toxic substance | GO:0097237 | 2 / 12 | 164× | 6.43e-5 | 2.18e-3 ✓ sig. |
| activation of adenylate cyclase activity | GO:0007190 | 2 / 15 | 131× | 1.02e-4 | 3.07e-3 ✓ sig. |
| positive regulation of cAMP/PKA signal transduction | GO:0141163 | 2 / 16 | 123× | 1.17e-4 | 3.40e-3 ✓ sig. |
| cellular response to oxygen-containing compound | GO:1901701 | 2 / 16 | 123× | 1.17e-4 | 3.40e-3 ✓ sig. |