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 205
8
Diseases
10
Unique genes
0.238
Avg. similarity score
Anodontia
Most-connected disease (6 links)
Disease
Pinned (dragged)
Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
click a node to select it and show its pairs below (double-click or Ctrl/⌘-click opens the disease page) ·
drag a node to pin it in place · scroll/pinch to zoom.
Anodontia
Wolf-hirschhorn syndrome
Tooth and nail syndrome
Witkop syndrome
tooth agenesis, selective, 1
Early-onset epilepsy-intellectual disability-brain anomalies syndrome
Severe neonatal spondylometaphyseal dysplasia
craniofacial dysplasia - osteopenia syndrome
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Anodontia | 6 | 6 | 4 |
| Wolf-hirschhorn syndrome | 5 | 5 | 7 |
| Tooth and nail syndrome | 4 | 4 | 1 |
| Witkop syndrome | 4 | 4 | 1 |
| tooth agenesis, selective, 1 | 4 | 4 | 1 |
| Early-onset epilepsy-intellectual disability-brain anomalies syndrome | 1 | 1 | 1 |
| Severe neonatal spondylometaphyseal dysplasia | 1 | 1 | 1 |
| craniofacial dysplasia - osteopenia syndrome | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| MSX1 | 5 / 8 | Anodontia, tooth agenesis, selective, 1, Tooth and nail syndrome, Witkop syndrome and 1 more |
| IRX5 | 2 / 8 | Anodontia, craniofacial dysplasia - osteopenia syndrome |
| PIGG | 2 / 8 | Early-onset epilepsy-intellectual disability-brain anomalies syndrome, Wolf-hirschhorn syndrome |
| SBDS | 2 / 8 | Anodontia, Severe neonatal spondylometaphyseal dysplasia |
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)
None of these pathways reaches significance (all FDR q ≥ 0.05). They’re the best candidates found, but treat them as weak evidence for why this cluster groups together.
Enriched GO Terms (Biological Process, a second line of biological evidence)
| GO term ⇵ | GO ID ⇵ | Overlap genes ⇵ | Fold enrichment ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| bone morphogenesis | GO:0060349 | 2 / 32 | 117× | 1.27e-4 | 3.61e-3 ✓ sig. |
| bone mineralization | GO:0030282 | 2 / 56 | 66.7× | 3.91e-4 | 8.07e-3 ✓ sig. |
| mitotic spindle organization | GO:0007052 | 2 / 58 | 64.4× | 4.19e-4 | 8.50e-3 ✓ sig. |
| negative regulation of odontoblast differentiation | GO:1901330 | 1 / 1 | 1,869× | 5.35e-4 | 9.98e-3 ✓ sig. |
| atrial septum secundum morphogenesis | GO:0003290 | 1 / 2 | 934× | 1.07e-3 | 1.57e-2 ✓ sig. |
| cell surface receptor signaling pathway involved in heart development | GO:0061311 | 1 / 2 | 934× | 1.07e-3 | 1.57e-2 ✓ sig. |
| positive regulation of mesenchymal cell apoptotic process | GO:2001055 | 1 / 3 | 623× | 1.60e-3 | 1.98e-2 ✓ sig. |
| negative regulation of striated muscle cell differentiation | GO:0051154 | 1 / 3 | 623× | 1.60e-3 | 1.98e-2 ✓ sig. |
| calcium export from the mitochondrion | GO:0099093 | 1 / 3 | 623× | 1.60e-3 | 1.98e-2 ✓ sig. |
| activation of meiosis | GO:0090427 | 1 / 4 | 467× | 2.14e-3 | 2.34e-2 ✓ sig. |
| embryonic nail plate morphogenesis | GO:0035880 | 1 / 4 | 467× | 2.14e-3 | 2.34e-2 ✓ sig. |
| regulation of odontogenesis | GO:0042481 | 1 / 4 | 467× | 2.14e-3 | 2.34e-2 ✓ sig. |
| regulation of cellular hyperosmotic salinity response | GO:1900069 | 1 / 4 | 467× | 2.14e-3 | 2.34e-2 ✓ sig. |
| negative regulation of mitochondrial calcium ion concentration | GO:0051562 | 1 / 4 | 467× | 2.14e-3 | 2.34e-2 ✓ sig. |
| mitochondrial potassium ion transmembrane transport | GO:0140141 | 1 / 4 | 467× | 2.14e-3 | 2.34e-2 ✓ sig. |