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 406
5
Diseases
7
Unique genes
0.276
Avg. similarity score
Bladder neck obstruction
Most-connected disease (4 links)
Disease
Searched: Bladder neck obstruction
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Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
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Bladder neck obstruction
Carcinoma in situ
Pericardial effusion
Urinary bladder neck obstruction
Ovarian diseases
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Bladder neck obstruction | 4 | 4 | 2 |
| Carcinoma in situ | 3 | 3 | 1 |
| Pericardial effusion | 3 | 3 | 4 |
| Urinary bladder neck obstruction | 3 | 3 | 1 |
| Ovarian diseases | 1 | 1 | 3 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| PTGS2 | 4 / 5 | Bladder neck obstruction, Carcinoma in situ, Pericardial effusion, Urinary bladder neck obstruction |
| CYP19A1 | 2 / 5 | Bladder neck obstruction, Ovarian diseases |
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 ⇵ |
|---|---|---|---|---|---|
| Ovarian steroidogenesis | KEGG | 3 / 52 | 99.0× | 2.65e-6 | 1.13e-4 ✓ sig. |
| Regulation of lipolysis in adipocytes | KEGG | 2 / 59 | 58.2× | 4.90e-4 | 8.02e-3 ✓ sig. |
| Defective CYP19A1 causes Aromatase excess syndrome (AEXS) | Reactome | 1 / 1 | 1,716× | 5.83e-4 | 9.16e-3 ✓ sig. |
| Biosynthesis of EPA-derived SPMs | Reactome | 1 / 1 | 1,716× | 5.83e-4 | 9.16e-3 ✓ sig. |
| Biosynthesis of DPAn-3 SPMs | Reactome | 1 / 1 | 1,716× | 5.83e-4 | 9.16e-3 ✓ sig. |
| Biosynthesis of electrophilic ω-3 PUFA oxo-derivatives | Reactome | 1 / 2 | 858× | 1.17e-3 | 1.56e-2 ✓ sig. |
| C-type lectin receptor signaling pathway | KEGG | 2 / 105 | 32.7× | 1.55e-3 | 1.93e-2 ✓ sig. |
| Biosynthesis of DHA-derived SPMs | Reactome | 1 / 3 | 572× | 1.75e-3 | 2.11e-2 ✓ sig. |
| Oxytocin signaling pathway | KEGG | 2 / 154 | 22.3× | 3.29e-3 | 3.33e-2 ✓ sig. |
| Mineralocorticoid biosynthesis | Reactome | 1 / 6 | 286× | 3.49e-3 | 3.48e-2 ✓ sig. |
| Estrogen biosynthesis | Reactome | 1 / 6 | 286× | 3.49e-3 | 3.48e-2 ✓ sig. |
| Synthesis of 15-eicosatetraenoic acid derivatives | Reactome | 1 / 6 | 286× | 3.49e-3 | 3.48e-2 ✓ sig. |
| Thyroxine biosynthesis | Reactome | 1 / 7 | 245× | 4.07e-3 | 3.88e-2 ✓ sig. |
| NOD-like receptor signaling pathway | KEGG | 2 / 187 | 18.3× | 4.81e-3 | 4.34e-2 ✓ sig. |
| Reactions specific to the complex N-glycan synthesis pathway | Reactome | 1 / 10 | 172× | 5.82e-3 | 4.95e-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 ⇵ |
|---|---|---|---|---|---|
| cellular response to non-ionic osmotic stress | GO:0071471 | 1 / 1 | 2,670× | 3.75e-4 | 8.02e-3 ✓ sig. |
| regulation of inflammatory response | GO:0050727 | 2 / 106 | 50.4× | 6.57e-4 | 1.17e-2 ✓ sig. |
| positive regulation of estradiol secretion | GO:2000866 | 1 / 2 | 1,335× | 7.49e-4 | 1.28e-2 ✓ sig. |
| positive regulation of steroid biosynthetic process | GO:0010893 | 1 / 2 | 1,335× | 7.49e-4 | 1.28e-2 ✓ sig. |
| positive regulation of platelet-derived growth factor production | GO:0090362 | 1 / 2 | 1,335× | 7.49e-4 | 1.28e-2 ✓ sig. |
| follicle-stimulating hormone secretion | GO:0046884 | 1 / 2 | 1,335× | 7.49e-4 | 1.28e-2 ✓ sig. |
| cellular response to temperature stimulus | GO:0071502 | 1 / 2 | 1,335× | 7.49e-4 | 1.28e-2 ✓ sig. |
| follicle-stimulating hormone signaling pathway | GO:0042699 | 1 / 3 | 890× | 1.12e-3 | 1.66e-2 ✓ sig. |
| trans-synaptic signaling by BDNF, modulating synaptic transmission | GO:0099183 | 1 / 3 | 890× | 1.12e-3 | 1.66e-2 ✓ sig. |
| negative regulation of chronic inflammatory response | GO:0002677 | 1 / 3 | 890× | 1.12e-3 | 1.66e-2 ✓ sig. |
| detection of biotic stimulus | GO:0009595 | 1 / 3 | 890× | 1.12e-3 | 1.66e-2 ✓ sig. |
| cyclooxygenase pathway | GO:0019371 | 1 / 3 | 890× | 1.12e-3 | 1.66e-2 ✓ sig. |
| positive regulation of fever generation | GO:0031622 | 1 / 4 | 667× | 1.50e-3 | 1.95e-2 ✓ sig. |
| positive regulation of fibroblast growth factor production | GO:0090271 | 1 / 4 | 667× | 1.50e-3 | 1.95e-2 ✓ sig. |
| regulation of signaling receptor activity | GO:0010469 | 1 / 4 | 667× | 1.50e-3 | 1.95e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Carcinoma in situ | Urinary bladder neck obstruction | 0.500 | 1 | 6.49e-5 | 2.32e-4 ✓ sig. |
| Bladder neck obstruction | Carcinoma in situ | 0.333 | 1 | 1.30e-4 | 3.91e-4 ✓ sig. |
| Bladder neck obstruction | Urinary bladder neck obstruction | 0.333 | 1 | 1.30e-4 | 3.91e-4 ✓ sig. |
| Carcinoma in situ | Pericardial effusion | 0.200 | 1 | 2.60e-4 | 6.48e-4 ✓ sig. |
| Pericardial effusion | Urinary bladder neck obstruction | 0.200 | 1 | 2.60e-4 | 6.48e-4 ✓ sig. |
| Bladder neck obstruction | Ovarian diseases | 0.200 | 1 | 3.90e-4 | 8.64e-4 ✓ sig. |
| Bladder neck obstruction | Pericardial effusion | 0.167 | 1 | 5.19e-4 | 1.06e-3 ✓ sig. |