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 270
7
Diseases
24
Unique genes
0.236
Avg. similarity score
Esophageal varices
Most-connected disease (5 links)
Disease
Searched: Bleeding esophageal varices
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Bleeding esophageal varices
Esophageal varices
Sweat gland disease
Esophageal and gastric varices
Vipoma
Dyshidrosis
Portal hypertension
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Esophageal varices | 5 | 5 | 4 |
| Sweat gland disease | 5 | 5 | 2 |
| Bleeding esophageal varices | 4 | 4 | 1 |
| Esophageal and gastric varices | 4 | 4 | 1 |
| Vipoma | 4 | 4 | 3 |
| Dyshidrosis | 1 | 1 | 5 |
| Portal hypertension | 1 | 1 | 15 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| SST | 5 / 7 | Bleeding esophageal varices, Esophageal and gastric varices, Esophageal varices, Sweat gland disease and 1 more |
| HAPLN4 | 2 / 7 | Esophageal varices, Portal hypertension |
| PNPLA3 | 2 / 7 | Esophageal varices, Portal hypertension |
| TCERG1L | 2 / 7 | Dyshidrosis, Sweat gland disease |
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 ⇵ |
|---|---|---|---|---|---|
| AGE-RAGE signaling pathway in diabetic complications | KEGG | 3 / 101 | 14.9× | 1.03e-3 | 1.44e-2 ✓ sig. |
| Signaling by VEGF | Reactome | 1 / 2 | 250× | 3.99e-3 | 3.87e-2 ✓ sig. |
| NOSIP mediated eNOS trafficking | Reactome | 1 / 2 | 250× | 3.99e-3 | 3.87e-2 ✓ sig. |
| Defective AVP does not bind AVPR2 and causes neurohypophyseal diabetes insipidus (NDI) | Reactome | 1 / 2 | 250× | 3.99e-3 | 3.87e-2 ✓ sig. |
| PI3K-Akt signaling pathway | KEGG | 4 / 361 | 5.5× | 5.30e-3 | 4.71e-2 ✓ sig. |
| Nitric oxide stimulates guanylate cyclase | Reactome | 1 / 3 | 167× | 5.98e-3 | 5.11e-2 |
| Defective AVP does not bind AVPR1A,B and causes neurohypophyseal diabetes insipidus (NDI) | Reactome | 1 / 3 | 167× | 5.98e-3 | 5.11e-2 |
| VEGF signaling pathway | KEGG | 2 / 60 | 16.7× | 6.31e-3 | 5.30e-2 |
| Kaposi sarcoma-associated herpesvirus infection | KEGG | 3 / 196 | 7.7× | 6.73e-3 | 5.51e-2 |
| Lipid and atherosclerosis | KEGG | 3 / 216 | 7.0× | 8.79e-3 | 6.54e-2 |
| Hormone signaling | KEGG | 3 / 219 | 6.9× | 9.13e-3 | 6.71e-2 |
| NOSTRIN mediated eNOS trafficking | Reactome | 1 / 5 | 100× | 9.95e-3 | 7.05e-2 |
| VEGF ligand-receptor interactions | Reactome | 1 / 5 | 100× | 9.95e-3 | 7.05e-2 |
| EGFR tyrosine kinase inhibitor resistance | KEGG | 2 / 80 | 12.5× | 1.10e-2 | 7.52e-2 |
| Vasopressin-like receptors | Reactome | 1 / 6 | 83.4× | 1.19e-2 | 7.90e-2 |
Enriched GO Terms (Biological Process, a second line of biological evidence)
| GO term ⇵ | GO ID ⇵ | Overlap genes ⇵ | Fold enrichment ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| negative regulation of cell-cell adhesion | GO:0022408 | 2 / 17 | 91.6× | 2.12e-4 | 5.44e-3 ✓ sig. |
| regulation of cell-cell adhesion | GO:0022407 | 2 / 19 | 82.0× | 2.67e-4 | 6.40e-3 ✓ sig. |
| retinal ganglion cell axon guidance | GO:0031290 | 2 / 21 | 74.2× | 3.27e-4 | 7.36e-3 ✓ sig. |
| modulation of chemical synaptic transmission | GO:0050804 | 3 / 121 | 19.3× | 4.85e-4 | 9.66e-3 ✓ sig. |
| regulation of postsynaptic membrane neurotransmitter receptor levels | GO:0099072 | 2 / 32 | 48.7× | 7.66e-4 | 1.32e-2 ✓ sig. |
| blood vessel diameter maintenance | GO:0097746 | 2 / 37 | 42.1× | 1.02e-3 | 1.58e-2 ✓ sig. |
| cell maturation | GO:0048469 | 2 / 37 | 42.1× | 1.02e-3 | 1.58e-2 ✓ sig. |
| nervous system development | GO:0007399 | 5 / 631 | 6.2× | 1.08e-3 | 1.63e-2 ✓ sig. |
| homeostasis of number of cells within a tissue | GO:0048873 | 2 / 38 | 41.0× | 1.08e-3 | 1.64e-2 ✓ sig. |
| lipopolysaccharide-mediated signaling pathway | GO:0031663 | 2 / 38 | 41.0× | 1.08e-3 | 1.64e-2 ✓ sig. |
| regulation of MAPK cascade | GO:0043408 | 2 / 41 | 38.0× | 1.26e-3 | 1.79e-2 ✓ sig. |
| mesoderm development | GO:0007498 | 2 / 41 | 38.0× | 1.26e-3 | 1.79e-2 ✓ sig. |
| nuclear receptor-mediated mineralocorticoid signaling pathway | GO:0031959 | 1 / 1 | 779× | 1.28e-3 | 1.80e-2 ✓ sig. |
| symbiont-induced defense-related programmed cell death | GO:0034050 | 1 / 1 | 779× | 1.28e-3 | 1.80e-2 ✓ sig. |
| interleukin-35-mediated signaling pathway | GO:0070757 | 1 / 1 | 779× | 1.28e-3 | 1.80e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Esophageal varices | Portal hypertension | 0.111 | 2 | 5.31e-6 | 2.74e-5 ✓ sig. |
| Bleeding esophageal varices | Esophageal and gastric varices | 0.500 | 1 | 6.49e-5 | 2.33e-4 ✓ sig. |
| Bleeding esophageal varices | Sweat gland disease | 0.333 | 1 | 1.30e-4 | 3.93e-4 ✓ sig. |
| Esophageal and gastric varices | Sweat gland disease | 0.333 | 1 | 1.30e-4 | 3.93e-4 ✓ sig. |
| Bleeding esophageal varices | Vipoma | 0.250 | 1 | 1.95e-4 | 5.35e-4 ✓ sig. |
| Esophageal and gastric varices | Vipoma | 0.250 | 1 | 1.95e-4 | 5.35e-4 ✓ sig. |
| Bleeding esophageal varices | Esophageal varices | 0.200 | 1 | 2.60e-4 | 6.51e-4 ✓ sig. |
| Esophageal and gastric varices | Esophageal varices | 0.200 | 1 | 2.60e-4 | 6.51e-4 ✓ sig. |
| Sweat gland disease | Vipoma | 0.200 | 1 | 3.90e-4 | 8.67e-4 ✓ sig. |
| Esophageal varices | Sweat gland disease | 0.167 | 1 | 5.19e-4 | 1.06e-3 ✓ sig. |
| Dyshidrosis | Sweat gland disease | 0.143 | 1 | 6.49e-4 | 1.24e-3 ✓ sig. |
| Esophageal varices | Vipoma | 0.143 | 1 | 7.79e-4 | 1.41e-3 ✓ sig. |