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 282
6
Diseases
31
Unique genes
0.203
Avg. similarity score
Amblyopia
Most-connected disease (4 links)
Disease
Pinned (dragged)
Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
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Amblyopia
Christianon syndrome
Christianson syndrome
Neurodegenerative disorder, x-linked, female-restricted, with parkinsonism and cognitive impairment
Astigmatism
CNGB1-related retinopathy
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Amblyopia | 4 | 4 | 25 |
| Christianon syndrome | 4 | 4 | 1 |
| Christianson syndrome | 4 | 4 | 1 |
| Neurodegenerative disorder, x-linked, female-restricted, with parkinsonism and cognitive impairment | 4 | 4 | 1 |
| Astigmatism | 3 | 3 | 7 |
| CNGB1-related retinopathy | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| SLC9A6 | 5 / 6 | Amblyopia, Astigmatism, Christianon syndrome, Christianson syndrome and 1 more |
| CNGB1 | 2 / 6 | Amblyopia, CNGB1-related retinopathy |
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)
Enriched GO Terms (Biological Process, a second line of biological evidence)
| GO term ⇵ | GO ID ⇵ | Overlap genes ⇵ | Fold enrichment ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| detection of light stimulus involved in visual perception | GO:0050908 | 3 / 24 | 75.4× | 8.17e-6 | 4.45e-4 ✓ sig. |
| negative regulation of osteoclast differentiation | GO:0045671 | 3 / 30 | 60.3× | 1.63e-5 | 7.66e-4 ✓ sig. |
| visual perception | GO:0007601 | 4 / 215 | 11.2× | 4.20e-4 | 8.52e-3 ✓ sig. |
| calcium ion import across plasma membrane | GO:0098703 | 2 / 28 | 43.1× | 9.80e-4 | 1.49e-2 ✓ sig. |
| negative regulation of calcium-independent cell-cell adhesion | GO:0051042 | 1 / 1 | 603× | 1.66e-3 | 2.03e-2 ✓ sig. |
| regulation of granulocyte chemotaxis | GO:0071622 | 1 / 1 | 603× | 1.66e-3 | 2.03e-2 ✓ sig. |
| positive regulation of epinephrine secretion | GO:0032812 | 1 / 1 | 603× | 1.66e-3 | 2.03e-2 ✓ sig. |
| beta-catenin-TCF complex assembly | GO:1904837 | 1 / 1 | 603× | 1.66e-3 | 2.03e-2 ✓ sig. |
| developmental maturation | GO:0021700 | 1 / 1 | 603× | 1.66e-3 | 2.03e-2 ✓ sig. |
| induction of synaptic plasticity by chemical substance | GO:0051915 | 1 / 1 | 603× | 1.66e-3 | 2.03e-2 ✓ sig. |
| optic cup structural organization | GO:0003409 | 1 / 1 | 603× | 1.66e-3 | 2.03e-2 ✓ sig. |
| nitric oxide production involved in inflammatory response | GO:0002537 | 1 / 1 | 603× | 1.66e-3 | 2.03e-2 ✓ sig. |
| axon extension | GO:0048675 | 2 / 37 | 32.6× | 1.71e-3 | 2.07e-2 ✓ sig. |
| calcium ion transmembrane transport | GO:0070588 | 3 / 149 | 12.1× | 1.90e-3 | 2.20e-2 ✓ sig. |
| positive regulation of bone mineralization | GO:0030501 | 2 / 42 | 28.7× | 2.20e-3 | 2.39e-2 ✓ sig. |