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 641
5
Diseases
12
Unique genes
0.249
Avg. similarity score
Multiple mitochondrial dysfunctions syndrome
Most-connected disease (4 links)
Disease
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Multiple mitochondrial dysfunctions syndrome
Multiple mitochondrial dysfunctions syndrome 1
Post-operative acute kidney injury
Spastic paraplegia 93, autosomal recessive
Multiple mitochondrial dysfunctions syndrome 2
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Multiple mitochondrial dysfunctions syndrome | 4 | 4 | 2 |
| Multiple mitochondrial dysfunctions syndrome 1 | 3 | 3 | 1 |
| Post-operative acute kidney injury | 3 | 3 | 11 |
| Spastic paraplegia 93, autosomal recessive | 3 | 3 | 1 |
| Multiple mitochondrial dysfunctions syndrome 2 | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| NFU1 | 4 / 5 | Multiple mitochondrial dysfunctions syndrome, Multiple mitochondrial dysfunctions syndrome 1, Post-operative acute kidney injury, Spastic paraplegia 93, autosomal recessive |
| BOLA3 | 2 / 5 | Multiple mitochondrial dysfunctions syndrome, Multiple mitochondrial dysfunctions syndrome 2 |
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 ⇵ |
|---|---|---|---|---|---|
| Negative regulation of the PI3K/AKT network | Reactome | 1 / 8 | 125× | 7.97e-3 | 4.94e-2 ✓ sig. |
| GABA synthesis, release, reuptake and degradation | Reactome | 1 / 13 | 77.0× | 1.29e-2 | 6.62e-2 |
| Attenuation phase | Reactome | 1 / 14 | 71.5× | 1.39e-2 | 6.94e-2 |
| Protein methylation | Reactome | 1 / 19 | 52.7× | 1.88e-2 | 8.28e-2 |
| HSF1-dependent transactivation | Reactome | 1 / 19 | 52.7× | 1.88e-2 | 8.28e-2 |
| Lysosome Vesicle Biogenesis | Reactome | 1 / 35 | 28.6× | 3.44e-2 | 1.17e-1 |
| NRAGE signals death through JNK | Reactome | 1 / 55 | 18.2× | 5.36e-2 | 1.50e-1 |
| HSP90 chaperone cycle for steroid hormone receptors (SHR) | Reactome | 1 / 55 | 18.2× | 5.36e-2 | 1.50e-1 |
| Legionellosis | KEGG | 1 / 56 | 17.9× | 5.46e-2 | 1.52e-1 |
| Golgi Associated Vesicle Biogenesis | Reactome | 1 / 56 | 17.9× | 5.46e-2 | 1.52e-1 |
| AUF1 (hnRNP D0) binds and destabilizes mRNA | Reactome | 1 / 56 | 17.9× | 5.46e-2 | 1.52e-1 |
| Longevity regulating pathway - multiple species | KEGG | 1 / 62 | 16.1× | 6.02e-2 | 1.61e-1 |
| Regulation of HSF1-mediated heat shock response | Reactome | 1 / 69 | 14.5× | 6.68e-2 | 1.71e-1 |
| RUNX1 regulates transcription of genes involved in differentiation of HSCs | Reactome | 1 / 69 | 14.5× | 6.68e-2 | 1.71e-1 |
| Viral myocarditis | KEGG | 1 / 70 | 14.3× | 6.78e-2 | 1.72e-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 ⇵ |
|---|---|---|---|---|---|
| iron-sulfur cluster assembly | GO:0016226 | 2 / 27 | 115× | 1.32e-4 | 3.76e-3 ✓ sig. |
| regulation of deadenylation-dependent decapping of nuclear-transcribed mRNA | GO:0106288 | 1 / 1 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| chromosome passenger complex localization to kinetochore | GO:0072356 | 1 / 1 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| regulation of protein import | GO:1904589 | 1 / 1 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| chaperone-mediated autophagy translocation complex disassembly | GO:1904764 | 1 / 1 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| regulation of supramolecular fiber organization | GO:1902903 | 1 / 2 | 779× | 1.28e-3 | 1.67e-2 ✓ sig. |
| response to lipoic acid | GO:1903442 | 1 / 2 | 779× | 1.28e-3 | 1.67e-2 ✓ sig. |
| regulation of cytoplasmic pattern recognition receptor signaling pathway | GO:0039531 | 1 / 2 | 779× | 1.28e-3 | 1.67e-2 ✓ sig. |
| negative regulation of supramolecular fiber organization | GO:1902904 | 1 / 2 | 779× | 1.28e-3 | 1.67e-2 ✓ sig. |
| positive regulation of attachment of spindle microtubules to kinetochore | GO:0051987 | 1 / 3 | 519× | 1.93e-3 | 2.07e-2 ✓ sig. |
| protein targeting to lysosome involved in chaperone-mediated autophagy | GO:0061740 | 1 / 4 | 389× | 2.57e-3 | 2.40e-2 ✓ sig. |
| clathrin coat disassembly | GO:0072318 | 1 / 4 | 389× | 2.57e-3 | 2.40e-2 ✓ sig. |
| CD4-positive, alpha-beta T cell activation | GO:0035710 | 1 / 4 | 389× | 2.57e-3 | 2.40e-2 ✓ sig. |
| protein maturation | GO:0051604 | 2 / 134 | 23.2× | 3.21e-3 | 2.69e-2 ✓ sig. |
| positive regulation of stress granule assembly | GO:0062029 | 1 / 7 | 222× | 4.49e-3 | 3.17e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Multiple mitochondrial dysfunctions syndrome 1 | Spastic paraplegia 93, autosomal recessive | 0.500 | 1 | 6.46e-5 | 1.98e-4 ✓ sig. |
| Multiple mitochondrial dysfunctions syndrome | Multiple mitochondrial dysfunctions syndrome 1 | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Multiple mitochondrial dysfunctions syndrome | Spastic paraplegia 93, autosomal recessive | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Multiple mitochondrial dysfunctions syndrome | Multiple mitochondrial dysfunctions syndrome 2 | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Multiple mitochondrial dysfunctions syndrome 1 | Post-operative acute kidney injury | 0.083 | 1 | 7.10e-4 | 1.17e-3 ✓ sig. |
| Post-operative acute kidney injury | Spastic paraplegia 93, autosomal recessive | 0.083 | 1 | 7.10e-4 | 1.17e-3 ✓ sig. |
| Multiple mitochondrial dysfunctions syndrome | Post-operative acute kidney injury | 0.077 | 1 | 1.42e-3 | 2.04e-3 ✓ sig. |