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 527
5
Diseases
14
Unique genes
0.229
Avg. similarity score
Acromegaly
Most-connected disease (4 links)
Disease
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Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
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Acromegaly
Growth hormone-secreting pituitary adenoma
Chromosome xq26.3 duplication syndrome
X-linked acrogigantism due to xq26 microduplication
Pituitary adenoma 1, multiple types
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Acromegaly | 4 | 4 | 2 |
| Growth hormone-secreting pituitary adenoma | 4 | 4 | 14 |
| Chromosome xq26.3 duplication syndrome | 3 | 3 | 1 |
| X-linked acrogigantism due to xq26 microduplication | 3 | 3 | 1 |
| Pituitary adenoma 1, multiple types | 2 | 2 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| GPR101 | 4 / 5 | Acromegaly, Chromosome xq26.3 duplication syndrome, Growth hormone-secreting pituitary adenoma, X-linked acrogigantism due to xq26 microduplication |
| AIP | 3 / 5 | Acromegaly, Growth hormone-secreting pituitary adenoma, Pituitary adenoma 1, multiple types |
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 ⇵ |
|---|---|---|---|---|---|
| Prolactin receptor signaling | Reactome | 2 / 12 | 143× | 8.27e-5 | 1.63e-3 ✓ sig. |
| Growth hormone receptor signaling | Reactome | 2 / 14 | 123× | 1.14e-4 | 2.10e-3 ✓ sig. |
| PKA activation in glucagon signalling | Reactome | 2 / 17 | 101× | 1.70e-4 | 2.89e-3 ✓ sig. |
| Growth hormone synthesis, secretion and action | KEGG | 3 / 122 | 21.1× | 3.43e-4 | 5.00e-3 ✓ sig. |
| Insulin signaling pathway | KEGG | 3 / 138 | 18.6× | 4.92e-4 | 6.61e-3 ✓ sig. |
| Phospholipase D signaling pathway | KEGG | 3 / 149 | 17.3× | 6.16e-4 | 7.86e-3 ✓ sig. |
| PI3K-Akt signaling pathway | KEGG | 4 / 361 | 9.5× | 6.33e-4 | 8.01e-3 ✓ sig. |
| JAK-STAT signaling pathway | KEGG | 3 / 168 | 15.3× | 8.74e-4 | 1.02e-2 ✓ sig. |
| Vasopressin regulates renal water homeostasis via Aquaporins | Reactome | 2 / 43 | 39.9× | 1.11e-3 | 1.22e-2 ✓ sig. |
| Chemical carcinogenesis - receptor activation | KEGG | 3 / 215 | 12.0× | 1.78e-3 | 1.75e-2 ✓ sig. |
| Hedgehog 'off' state | Reactome | 2 / 56 | 30.6× | 1.87e-3 | 1.82e-2 ✓ sig. |
| Hormone signaling | KEGG | 3 / 219 | 11.8× | 1.88e-3 | 1.82e-2 ✓ sig. |
| Human cytomegalovirus infection | KEGG | 3 / 226 | 11.4× | 2.05e-3 | 1.94e-2 ✓ sig. |
| Long-term depression | KEGG | 2 / 60 | 28.6× | 2.15e-3 | 2.01e-2 ✓ sig. |
| Thermogenesis | KEGG | 3 / 234 | 11.0× | 2.27e-3 | 2.09e-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 glucagon stimulus | GO:0071377 | 2 / 11 | 243× | 2.86e-5 | 1.20e-3 ✓ sig. |
| adenylate cyclase-activating adrenergic receptor signaling pathway | GO:0071880 | 2 / 14 | 191× | 4.72e-5 | 1.77e-3 ✓ sig. |
| cardiac muscle cell proliferation | GO:0060038 | 2 / 28 | 95.3× | 1.95e-4 | 4.99e-3 ✓ sig. |
| positive regulation of receptor signaling pathway via JAK-STAT | GO:0046427 | 2 / 40 | 66.7× | 4.00e-4 | 8.18e-3 ✓ sig. |
| endocytosis | GO:0006897 | 3 / 223 | 18.0× | 5.54e-4 | 1.01e-2 ✓ sig. |
| positive regulation of MAPK cascade | GO:0043410 | 3 / 224 | 17.9× | 5.61e-4 | 1.02e-2 ✓ sig. |
| positive regulation of lactation | GO:1903489 | 1 / 2 | 667× | 1.50e-3 | 1.82e-2 ✓ sig. |
| response to nutrient levels | GO:0031667 | 2 / 79 | 33.8× | 1.55e-3 | 1.87e-2 ✓ sig. |
| female pregnancy | GO:0007565 | 2 / 80 | 33.4× | 1.59e-3 | 1.88e-2 ✓ sig. |
| neural tube closure | GO:0001843 | 2 / 85 | 31.4× | 1.80e-3 | 2.01e-2 ✓ sig. |
| bone maturation | GO:0070977 | 1 / 3 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| regulation of protein localization to chromatin | GO:1905634 | 1 / 3 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| positive regulation of miRNA metabolic process | GO:2000630 | 1 / 3 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| microtubule cytoskeleton organization involved in mitosis | GO:1902850 | 1 / 4 | 334× | 2.99e-3 | 2.59e-2 ✓ sig. |
| prolactin signaling pathway | GO:0038161 | 1 / 4 | 334× | 2.99e-3 | 2.59e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Acromegaly | Growth hormone-secreting pituitary adenoma | 0.133 | 2 | 7.59e-7 | 4.67e-6 ✓ sig. |
| Chromosome xq26.3 duplication syndrome | X-linked acrogigantism due to xq26 microduplication | 0.500 | 1 | 6.46e-5 | 1.98e-4 ✓ sig. |
| Acromegaly | Pituitary adenoma 1, multiple types | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Acromegaly | Chromosome xq26.3 duplication syndrome | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Acromegaly | X-linked acrogigantism due to xq26 microduplication | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Chromosome xq26.3 duplication syndrome | Growth hormone-secreting pituitary adenoma | 0.067 | 1 | 9.04e-4 | 1.41e-3 ✓ sig. |
| Growth hormone-secreting pituitary adenoma | Pituitary adenoma 1, multiple types | 0.067 | 1 | 9.04e-4 | 1.41e-3 ✓ sig. |
| Growth hormone-secreting pituitary adenoma | X-linked acrogigantism due to xq26 microduplication | 0.067 | 1 | 9.04e-4 | 1.41e-3 ✓ sig. |