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 364
5
Diseases
12
Unique genes
0.201
Avg. similarity score
Ataxia telangiectasia
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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Ataxia telangiectasia
ATM-related cancer predisposition
Chromosome 17q21.31 deletion syndrome
Conjunctival telangiectasis
Intracranial germ cell tumor
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Ataxia telangiectasia | 4 | 4 | 11 |
| ATM-related cancer predisposition | 3 | 3 | 1 |
| Chromosome 17q21.31 deletion syndrome | 3 | 3 | 3 |
| Conjunctival telangiectasis | 3 | 3 | 1 |
| Intracranial germ cell tumor | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| ATM | 4 / 5 | Ataxia telangiectasia, ATM-related cancer predisposition, Chromosome 17q21.31 deletion syndrome, Conjunctival telangiectasis |
| BAK1 | 2 / 5 | Ataxia telangiectasia, Intracranial germ cell tumor |
| C11ORF65 | 2 / 5 | Ataxia telangiectasia, Chromosome 17q21.31 deletion syndrome |
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 ⇵ |
|---|---|---|---|---|---|
| Thyroid cancer | KEGG | 3 / 37 | 81.1× | 5.81e-6 | 2.14e-4 ✓ sig. |
| Release of apoptotic factors from the mitochondria | Reactome | 2 / 5 | 400× | 9.14e-6 | 3.12e-4 ✓ sig. |
| HDR through Homologous Recombination (HRR) | Reactome | 3 / 48 | 62.6× | 1.29e-5 | 4.14e-4 ✓ sig. |
| Hepatitis C | KEGG | 4 / 159 | 25.2× | 1.35e-5 | 4.30e-4 ✓ sig. |
| Sensing of DNA Double Strand Breaks | Reactome | 2 / 6 | 334× | 1.37e-5 | 4.36e-4 ✓ sig. |
| Endometrial cancer | KEGG | 3 / 59 | 50.9× | 2.40e-5 | 6.93e-4 ✓ sig. |
| RUNX1 and FOXP3 control the development of regulatory T lymphocytes (Tregs) | Reactome | 2 / 10 | 200× | 4.10e-5 | 1.09e-3 ✓ sig. |
| Melanoma | KEGG | 3 / 73 | 41.1× | 4.56e-5 | 1.18e-3 ✓ sig. |
| Non-small cell lung cancer | KEGG | 3 / 73 | 41.1× | 4.56e-5 | 1.18e-3 ✓ sig. |
| Platinum drug resistance | KEGG | 3 / 75 | 40.0× | 4.94e-5 | 1.27e-3 ✓ sig. |
| Glioma | KEGG | 3 / 76 | 39.5× | 5.14e-5 | 1.31e-3 ✓ sig. |
| Pancreatic cancer | KEGG | 3 / 77 | 39.0× | 5.35e-5 | 1.35e-3 ✓ sig. |
| Chronic myeloid leukemia | KEGG | 3 / 77 | 39.0× | 5.35e-5 | 1.35e-3 ✓ sig. |
| Colorectal cancer | KEGG | 3 / 87 | 34.5× | 7.71e-5 | 1.81e-3 ✓ sig. |
| Pathways in cancer | KEGG | 5 / 533 | 9.4× | 1.03e-4 | 2.31e-3 ✓ 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 ⇵ |
|---|---|---|---|---|---|
| positive regulation of protein-containing complex assembly | GO:0031334 | 4 / 50 | 125× | 2.21e-8 | 3.40e-6 ✓ sig. |
| B cell negative selection | GO:0002352 | 2 / 2 | 1,557× | 3.78e-7 | 3.70e-5 ✓ sig. |
| positive regulation of release of cytochrome c from mitochondria | GO:0090200 | 3 / 25 | 187× | 4.62e-7 | 4.37e-5 ✓ sig. |
| extrinsic apoptotic signaling pathway in absence of ligand | GO:0097192 | 3 / 36 | 130× | 1.43e-6 | 1.10e-4 ✓ sig. |
| post-embryonic camera-type eye morphogenesis | GO:0048597 | 2 / 4 | 779× | 2.27e-6 | 1.59e-4 ✓ sig. |
| apoptotic process involved in blood vessel morphogenesis | GO:1902262 | 2 / 5 | 623× | 3.78e-6 | 2.40e-4 ✓ sig. |
| intrinsic apoptotic signaling pathway in response to DNA damage | GO:0008630 | 3 / 54 | 86.5× | 4.93e-6 | 2.97e-4 ✓ sig. |
| cellular response to UV | GO:0034644 | 3 / 55 | 84.9× | 5.21e-6 | 3.11e-4 ✓ sig. |
| negative regulation of endoplasmic reticulum calcium ion concentration | GO:0032471 | 2 / 6 | 519× | 5.66e-6 | 3.31e-4 ✓ sig. |
| positive regulation of IRE1-mediated unfolded protein response | GO:1903896 | 2 / 8 | 389× | 1.06e-5 | 5.43e-4 ✓ sig. |
| regulation of apoptotic signaling pathway | GO:2001233 | 2 / 9 | 346× | 1.36e-5 | 6.62e-4 ✓ sig. |
| leukocyte homeostasis | GO:0001776 | 2 / 9 | 346× | 1.36e-5 | 6.62e-4 ✓ sig. |
| regulation of apoptotic process | GO:0042981 | 4 / 254 | 24.5× | 1.51e-5 | 7.24e-4 ✓ sig. |
| vagina development | GO:0060068 | 2 / 10 | 311× | 1.70e-5 | 7.89e-4 ✓ sig. |
| establishment or maintenance of transmembrane electrochemical gradient | GO:0010248 | 2 / 11 | 283× | 2.07e-5 | 9.23e-4 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Ataxia telangiectasia | Chromosome 17q21.31 deletion syndrome | 0.154 | 2 | 1.39e-6 | 8.41e-6 ✓ sig. |
| ATM-related cancer predisposition | Conjunctival telangiectasis | 0.500 | 1 | 6.49e-5 | 2.34e-4 ✓ sig. |
| ATM-related cancer predisposition | Chromosome 17q21.31 deletion syndrome | 0.250 | 1 | 1.95e-4 | 5.28e-4 ✓ sig. |
| Chromosome 17q21.31 deletion syndrome | Conjunctival telangiectasis | 0.250 | 1 | 1.95e-4 | 5.28e-4 ✓ sig. |
| Ataxia telangiectasia | Conjunctival telangiectasis | 0.083 | 1 | 7.14e-4 | 1.31e-3 ✓ sig. |
| Ataxia telangiectasia | ATM-related cancer predisposition | 0.083 | 1 | 7.14e-4 | 1.31e-3 ✓ sig. |
| Ataxia telangiectasia | Intracranial germ cell tumor | 0.083 | 1 | 7.14e-4 | 1.31e-3 ✓ sig. |