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 376
5
Diseases
10
Unique genes
0.270
Avg. similarity score
Eye pain
Most-connected disease (4 links)
Disease
Searched: Pancreatic diseases
Pinned (dragged)
Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
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Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Eye pain | 4 | 4 | 1 |
| Rhabdomyoma | 4 | 4 | 1 |
| Sacroiliitis | 4 | 4 | 1 |
| Constipation | 3 | 3 | 5 |
| Pancreatic diseases | 3 | 3 | 6 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| POMC | 5 / 5 | Constipation, Eye pain, Pancreatic diseases, Rhabdomyoma and 1 more |
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 ⇵ |
|---|---|---|---|---|---|
| Opioid Signalling | Reactome | 2 / 3 | 801× | 1.87e-6 | 8.97e-5 ✓ sig. |
| Hormone signaling | KEGG | 4 / 219 | 21.9× | 2.07e-5 | 6.50e-4 ✓ sig. |
| Heme degradation | Reactome | 2 / 14 | 172× | 5.65e-5 | 1.47e-3 ✓ sig. |
| Interleukin-4 and Interleukin-13 signaling | Reactome | 3 / 108 | 33.4× | 8.11e-5 | 1.97e-3 ✓ sig. |
| ADORA2B mediated anti-inflammatory cytokines production | Reactome | 3 / 128 | 28.1× | 1.34e-4 | 2.93e-3 ✓ sig. |
| Neuroactive ligand-receptor interaction | KEGG | 4 / 370 | 13.0× | 1.61e-4 | 3.38e-3 ✓ sig. |
| G alpha (s) signalling events | Reactome | 3 / 140 | 25.7× | 1.75e-4 | 3.61e-3 ✓ sig. |
| G-protein activation | Reactome | 2 / 28 | 85.8× | 2.33e-4 | 4.52e-3 ✓ sig. |
| Adipocytokine signaling pathway | KEGG | 2 / 70 | 34.3× | 1.46e-3 | 1.88e-2 ✓ sig. |
| Defective ACTH causes Obesity and Pro-opiomelanocortinin deficiency (POMCD) | Reactome | 1 / 2 | 601× | 1.66e-3 | 2.07e-2 ✓ sig. |
| Peptide hormone biosynthesis | Reactome | 1 / 2 | 601× | 1.66e-3 | 2.07e-2 ✓ sig. |
| Peptide ligand-binding receptors | Reactome | 2 / 106 | 22.7× | 3.32e-3 | 3.39e-2 ✓ sig. |
| Post-translational protein phosphorylation | Reactome | 2 / 108 | 22.2× | 3.44e-3 | 3.48e-2 ✓ sig. |
| RUNX3 Regulates Immune Response and Cell Migration | Reactome | 1 / 5 | 240× | 4.16e-3 | 3.99e-2 ✓ sig. |
| Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs) | Reactome | 2 / 125 | 19.2× | 4.58e-3 | 4.26e-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 ⇵ |
|---|---|---|---|---|---|
| positive regulation of ERK1 and ERK2 cascade | GO:0070374 | 4 / 201 | 37.2× | 2.59e-6 | 1.84e-4 ✓ sig. |
| glucose homeostasis | GO:0042593 | 3 / 134 | 41.8× | 4.17e-5 | 1.62e-3 ✓ sig. |
| positive regulation of chemokine production | GO:0032722 | 2 / 49 | 76.3× | 2.99e-4 | 6.95e-3 ✓ sig. |
| gluconeogenesis | GO:0006094 | 2 / 56 | 66.7× | 3.91e-4 | 8.34e-3 ✓ sig. |
| negative regulation of collateral sprouting of intact axon in response to injury | GO:0048685 | 1 / 1 | 1,869× | 5.35e-4 | 1.03e-2 ✓ sig. |
| regulation of CD4-positive, alpha-beta T cell activation | GO:2000514 | 1 / 1 | 1,869× | 5.35e-4 | 1.03e-2 ✓ sig. |
| negative regulation of Wnt protein secretion | GO:0061358 | 1 / 1 | 1,869× | 5.35e-4 | 1.03e-2 ✓ sig. |
| cellular pigmentation | GO:0033059 | 1 / 1 | 1,869× | 5.35e-4 | 1.03e-2 ✓ sig. |
| positive regulation of oxytocin production | GO:0140668 | 1 / 1 | 1,869× | 5.35e-4 | 1.03e-2 ✓ sig. |
| organophosphate catabolic process | GO:0046434 | 1 / 1 | 1,869× | 5.35e-4 | 1.03e-2 ✓ sig. |
| adenylate cyclase-activating G protein-coupled bile acid receptor signaling pathway | GO:0038184 | 1 / 1 | 1,869× | 5.35e-4 | 1.03e-2 ✓ sig. |
| phagocytosis | GO:0006909 | 2 / 85 | 44.0× | 8.99e-4 | 1.46e-2 ✓ sig. |
| transport across blood-brain barrier | GO:0150104 | 2 / 85 | 44.0× | 8.99e-4 | 1.46e-2 ✓ sig. |
| negative regulation of blood circulation | GO:1903523 | 1 / 2 | 934× | 1.07e-3 | 1.63e-2 ✓ sig. |
| positive regulation of estradiol secretion | GO:2000866 | 1 / 2 | 934× | 1.07e-3 | 1.63e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Eye pain | Rhabdomyoma | 0.500 | 1 | 6.49e-5 | 2.33e-4 ✓ sig. |
| Eye pain | Sacroiliitis | 0.500 | 1 | 6.49e-5 | 2.33e-4 ✓ sig. |
| Rhabdomyoma | Sacroiliitis | 0.500 | 1 | 6.49e-5 | 2.33e-4 ✓ sig. |
| Constipation | Eye pain | 0.167 | 1 | 3.25e-4 | 7.71e-4 ✓ sig. |
| Constipation | Rhabdomyoma | 0.167 | 1 | 3.25e-4 | 7.71e-4 ✓ sig. |
| Constipation | Sacroiliitis | 0.167 | 1 | 3.25e-4 | 7.71e-4 ✓ sig. |
| Eye pain | Pancreatic diseases | 0.143 | 1 | 3.90e-4 | 8.67e-4 ✓ sig. |
| Pancreatic diseases | Rhabdomyoma | 0.143 | 1 | 3.90e-4 | 8.67e-4 ✓ sig. |
| Pancreatic diseases | Sacroiliitis | 0.143 | 1 | 3.90e-4 | 8.67e-4 ✓ sig. |