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 514
5
Diseases
21
Unique genes
0.266
Avg. similarity score
Dysphonia
Most-connected disease (4 links)
Disease
Pinned (dragged)
Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
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Dysphonia
Bulimia
Intermittent explosive disorder
Perrault syndrome 5
Progressive external ophthalmoplegia with mitochondrial dna deletions, autosomal dominant 3
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Dysphonia | 4 | 4 | 2 |
| Bulimia | 2 | 2 | 20 |
| Intermittent explosive disorder | 2 | 2 | 1 |
| Perrault syndrome 5 | 2 | 2 | 1 |
| Progressive external ophthalmoplegia with mitochondrial dna deletions, autosomal dominant 3 | 2 | 2 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| COMT | 3 / 5 | Bulimia, Dysphonia, Intermittent explosive disorder |
| TWNK | 3 / 5 | Dysphonia, Perrault syndrome 5, Progressive external ophthalmoplegia with mitochondrial dna deletions, autosomal dominant 3 |
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 ⇵ |
|---|---|---|---|---|---|
| Enzymatic degradation of Dopamine by monoamine oxidase | Reactome | 1 / 2 | 286× | 3.49e-3 | 2.83e-2 ✓ sig. |
| Enzymatic degradation of dopamine by COMT | Reactome | 1 / 3 | 191× | 5.24e-3 | 3.76e-2 ✓ sig. |
| Reelin signalling pathway | Reactome | 1 / 5 | 114× | 8.71e-3 | 5.22e-2 |
| Protein repair | Reactome | 1 / 6 | 95.3× | 1.04e-2 | 5.84e-2 |
| Sperm Motility And Taxes | Reactome | 1 / 9 | 63.5× | 1.56e-2 | 7.44e-2 |
| Purine metabolism | KEGG | 2 / 128 | 8.9× | 2.07e-2 | 8.77e-2 |
| Purine catabolism | Reactome | 1 / 12 | 47.7× | 2.08e-2 | 8.77e-2 |
| TP53 regulates transcription of several additional cell death genes whose specific roles in p53-dependent apoptosis remain uncertain | Reactome | 1 / 14 | 40.9× | 2.42e-2 | 9.57e-2 |
| Methylation | Reactome | 1 / 14 | 40.9× | 2.42e-2 | 9.57e-2 |
| Spinocerebellar ataxia | KEGG | 2 / 144 | 7.9× | 2.58e-2 | 9.94e-2 |
| Virion - Lassa virus and SFTS virus | KEGG | 1 / 17 | 33.6× | 2.93e-2 | 1.07e-1 |
| Homologous DNA Pairing and Strand Exchange | Reactome | 1 / 25 | 22.9× | 4.29e-2 | 1.33e-1 |
| Resolution of D-loop Structures through Synthesis-Dependent Strand Annealing (SDSA) | Reactome | 1 / 26 | 22.0× | 4.45e-2 | 1.36e-1 |
| Folate biosynthesis | KEGG | 1 / 28 | 20.4× | 4.79e-2 | 1.41e-1 |
| Resolution of D-loop Structures through Holliday Junction Intermediates | Reactome | 1 / 33 | 17.3× | 5.62e-2 | 1.55e-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 ⇵ |
|---|---|---|---|---|---|
| cell-cell adhesion involved in neuronal-glial interactions involved in cerebral cortex radial glia guided migration | GO:0021813 | 1 / 1 | 890× | 1.12e-3 | 1.55e-2 ✓ sig. |
| catecholamine catabolic process | GO:0042424 | 1 / 1 | 890× | 1.12e-3 | 1.55e-2 ✓ sig. |
| norepinephrine secretion | GO:0048243 | 1 / 1 | 890× | 1.12e-3 | 1.55e-2 ✓ sig. |
| response to dopamine | GO:1903350 | 1 / 1 | 890× | 1.12e-3 | 1.55e-2 ✓ sig. |
| cerebellum structural organization | GO:0021589 | 1 / 2 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| regulation of sister chromatid segregation | GO:0033045 | 1 / 2 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| maintenance of rDNA | GO:0043007 | 1 / 2 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| spindle midzone assembly | GO:0051255 | 1 / 2 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| radial glia guided migration of Purkinje cell | GO:0021942 | 1 / 3 | 297× | 3.37e-3 | 2.76e-2 ✓ sig. |
| lateral motor column neuron migration | GO:0097477 | 1 / 3 | 297× | 3.37e-3 | 2.76e-2 ✓ sig. |
| radial glia-guided pyramidal neuron migration | GO:0140650 | 1 / 3 | 297× | 3.37e-3 | 2.76e-2 ✓ sig. |
| cellular response to phosphate starvation | GO:0016036 | 1 / 3 | 297× | 3.37e-3 | 2.76e-2 ✓ sig. |
| renal filtration | GO:0097205 | 1 / 3 | 297× | 3.37e-3 | 2.76e-2 ✓ sig. |
| purine nucleotide catabolic process | GO:0006195 | 1 / 3 | 297× | 3.37e-3 | 2.76e-2 ✓ sig. |
| C-terminal protein deglutamylation | GO:0035609 | 1 / 4 | 222× | 4.49e-3 | 3.17e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Perrault syndrome 5 | Progressive external ophthalmoplegia with mitochondrial dna deletions, autosomal dominant 3 | 0.500 | 1 | 6.46e-5 | 1.98e-4 ✓ sig. |
| Dysphonia | Intermittent explosive disorder | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Dysphonia | Perrault syndrome 5 | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Dysphonia | Progressive external ophthalmoplegia with mitochondrial dna deletions, autosomal dominant 3 | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Bulimia | Intermittent explosive disorder | 0.048 | 1 | 1.29e-3 | 1.89e-3 ✓ sig. |
| Bulimia | Dysphonia | 0.045 | 1 | 2.58e-3 | 3.34e-3 ✓ sig. |