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 233
9
Diseases
11
Unique genes
0.141
Avg. similarity score
Ciliary dyskinesia, with or without situs inversus
Most-connected disease (8 links)
Disease
Searched: Primary ciliary dyskinesia 11
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Primary ciliary dyskinesia 11
Ciliary dyskinesia, with or without situs inversus
Polynesian bronchiectasis
Primary ciliary dyskinesia 15
Primary ciliary dyskinesia 17
Primary ciliary dyskinesia 2
Primary ciliary dyskinesia 3
Primary ciliary dyskinesia 7
Primary ciliary dyskinesia 30
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Ciliary dyskinesia, with or without situs inversus | 8 | 8 | 11 |
| Polynesian bronchiectasis | 6 | 6 | 9 |
| Primary ciliary dyskinesia 15 | 2 | 2 | 1 |
| Primary ciliary dyskinesia 17 | 2 | 2 | 1 |
| Primary ciliary dyskinesia 2 | 2 | 2 | 1 |
| Primary ciliary dyskinesia 3 | 2 | 2 | 1 |
| Primary ciliary dyskinesia 7 | 2 | 2 | 1 |
| Primary ciliary dyskinesia 11 | 1 | 1 | 1 |
| Primary ciliary dyskinesia 30 | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| CCDC40 | 3 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis, Primary ciliary dyskinesia 15 |
| DNAAF19 | 3 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis, Primary ciliary dyskinesia 17 |
| DNAAF3 | 3 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis, Primary ciliary dyskinesia 2 |
| DNAH11 | 3 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis, Primary ciliary dyskinesia 7 |
| DNAH5 | 3 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis, Primary ciliary dyskinesia 3 |
| DNAAF4 | 2 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis |
| DNAI1 | 2 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis |
| DRC1 | 2 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis |
| MBL2 | 2 / 9 | Ciliary dyskinesia, with or without situs inversus, Polynesian bronchiectasis |
| ODAD3 | 2 / 9 | Ciliary dyskinesia, with or without situs inversus, Primary ciliary dyskinesia 30 |
| RSPH4A | 2 / 9 | Ciliary dyskinesia, with or without situs inversus, Primary ciliary dyskinesia 11 |
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 ⇵ |
|---|---|---|---|---|---|
| Motor proteins | KEGG | 3 / 194 | 16.9× | 6.22e-4 | 7.92e-3 ✓ sig. |
| Huntington disease | KEGG | 3 / 308 | 10.6× | 2.37e-3 | 2.15e-2 ✓ sig. |
| Amyotrophic lateral sclerosis | KEGG | 3 / 368 | 8.9× | 3.92e-3 | 3.09e-2 ✓ sig. |
| Lectin pathway of complement activation | Reactome | 1 / 8 | 136× | 7.31e-3 | 4.67e-2 ✓ sig. |
| Pathways of neurodegeneration - multiple diseases | KEGG | 3 / 480 | 6.8× | 8.23e-3 | 5.04e-2 |
| Initial triggering of complement | Reactome | 1 / 17 | 64.2× | 1.55e-2 | 7.39e-2 |
| Complement and coagulation cascades | KEGG | 1 / 88 | 12.4× | 7.77e-2 | 1.87e-1 |
| Staphylococcus aureus infection | KEGG | 1 / 99 | 11.0× | 8.71e-2 | 1.99e-1 |
| Phagosome | KEGG | 1 / 155 | 7.0× | 1.33e-1 | 2.56e-1 |
| Coronavirus disease - COVID-19 | KEGG | 1 / 238 | 4.6× | 1.98e-1 | 3.29e-1 |
Enriched GO Terms (Biological Process, a second line of biological evidence)
| GO term ⇵ | GO ID ⇵ | Overlap genes ⇵ | Fold enrichment ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| determination of left/right symmetry | GO:0007368 | 8 / 83 | 164× | 1.75e-17 | 1.97e-14 ✓ sig. |
| cilium movement | GO:0003341 | 7 / 48 | 248× | 1.53e-16 | 1.44e-13 ✓ sig. |
| epithelial cilium movement involved in extracellular fluid movement | GO:0003351 | 6 / 26 | 392× | 1.79e-15 | 1.41e-12 ✓ sig. |
| heart development | GO:0007507 | 7 / 273 | 43.6× | 4.13e-11 | 1.38e-8 ✓ sig. |
| flagellated sperm motility | GO:0030317 | 6 / 142 | 71.8× | 7.75e-11 | 2.43e-8 ✓ sig. |
| outer dynein arm assembly | GO:0036158 | 4 / 22 | 309× | 4.73e-10 | 1.22e-7 ✓ sig. |
| epithelial cilium movement involved in determination of left/right asymmetry | GO:0060287 | 3 / 13 | 392× | 4.33e-8 | 6.28e-6 ✓ sig. |
| axonemal dynein complex assembly | GO:0070286 | 3 / 16 | 319× | 8.46e-8 | 1.10e-5 ✓ sig. |
| cilium movement involved in cell motility | GO:0060294 | 3 / 27 | 189× | 4.40e-7 | 4.38e-5 ✓ sig. |
| axoneme assembly | GO:0035082 | 3 / 33 | 154× | 8.20e-7 | 7.30e-5 ✓ sig. |
| cell projection organization | GO:0030030 | 4 / 214 | 31.8× | 5.18e-6 | 3.26e-4 ✓ sig. |
| regulation of cilium beat frequency | GO:0003356 | 2 / 8 | 425× | 8.80e-6 | 4.92e-4 ✓ sig. |
| cerebrospinal fluid circulation | GO:0090660 | 2 / 18 | 189× | 4.80e-5 | 1.79e-3 ✓ sig. |
| inner dynein arm assembly | GO:0036159 | 2 / 18 | 189× | 4.80e-5 | 1.79e-3 ✓ sig. |
| seminiferous tubule development | GO:0072520 | 2 / 21 | 162× | 6.58e-5 | 2.26e-3 ✓ sig. |