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 62
14
Diseases
316
Unique genes
0.083
Avg. similarity score
Mitochondrial disease
Most-connected disease (9 links)
Disease
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Mitochondrial disease
Leigh syndrome
Combined oxidative phosphorylation deficiency
Mitochondrial complex deficiency
Mitochondrial encephalomyopathy
Cytochrome c oxidase deficiency
Cardioencephalomyopathy, fatal infantile, due to cytochrome c oxidase deficiency
Mitochondrial encephalocardiomyopathy
Sandhoff disease
Codas syndrome
Peripheral neuropathy with variable spasticity, exercise intolerance, and developmental delay
Early-onset dystonia with spastic paraplegia
Pancreatic insufficiency syndrome
mitochondrial short-chain enoyl-coa hydratase 1 deficiency
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Mitochondrial disease | 9 | 9 | 242 |
| Leigh syndrome | 8 | 8 | 107 |
| Combined oxidative phosphorylation deficiency | 5 | 5 | 68 |
| Mitochondrial complex deficiency | 5 | 5 | 119 |
| Mitochondrial encephalomyopathy | 5 | 5 | 16 |
| Cytochrome c oxidase deficiency | 4 | 4 | 20 |
| Cardioencephalomyopathy, fatal infantile, due to cytochrome c oxidase deficiency | 3 | 3 | 5 |
| Mitochondrial encephalocardiomyopathy | 3 | 3 | 1 |
| Sandhoff disease | 3 | 3 | 2 |
| Codas syndrome | 2 | 2 | 1 |
| Peripheral neuropathy with variable spasticity, exercise intolerance, and developmental delay | 2 | 2 | 1 |
| Early-onset dystonia with spastic paraplegia | 1 | 1 | 1 |
| Pancreatic insufficiency syndrome | 1 | 1 | 1 |
| mitochondrial short-chain enoyl-coa hydratase 1 deficiency | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases ‐ top 100 shown, download for all)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| SCO2 | 6 / 14 | Cardioencephalomyopathy, fatal infantile, due to cytochrome c oxidase deficiency, Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency and 2 more |
| COX15 | 5 / 14 | Cardioencephalomyopathy, fatal infantile, due to cytochrome c oxidase deficiency, Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency and 1 more |
| SURF1 | 5 / 14 | Cardioencephalomyopathy, fatal infantile, due to cytochrome c oxidase deficiency, Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency and 1 more |
| COA5 | 4 / 14 | Cardioencephalomyopathy, fatal infantile, due to cytochrome c oxidase deficiency, Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, mitochondrial disease |
| COA6 | 4 / 14 | Cardioencephalomyopathy, fatal infantile, due to cytochrome c oxidase deficiency, Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, mitochondrial disease |
| COX10 | 4 / 14 | Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| COX4I1 | 4 / 14 | Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| COX8A | 4 / 14 | Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| FARS2 | 4 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, mitochondrial disease, Mitochondrial encephalomyopathy |
| FASTKD2 | 4 / 14 | Combined oxidative phosphorylation deficiency, Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, Mitochondrial disease |
| FOXRED1 | 4 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease, Mitochondrial encephalomyopathy |
| GFM2 | 4 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, Mitochondrial disease, Sandhoff disease |
| LRPPRC | 4 / 14 | Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| MTRFR | 4 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, Mitochondrial disease, Mitochondrial encephalomyopathy |
| NDUFS2 | 4 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease, Mitochondrial encephalomyopathy |
| NDUFV2 | 4 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease, Mitochondrial encephalomyopathy |
| PET100 | 4 / 14 | Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| PET117 | 4 / 14 | Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| SCO1 | 4 / 14 | Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| TACO1 | 4 / 14 | Cytochrome c oxidase deficiency, Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| TMEM70 | 4 / 14 | Mitochondrial complex deficiency, Mitochondrial disease, Mitochondrial encephalocardiomyopathy, Mitochondrial encephalomyopathy |
| ATP5F1A | 3 / 14 | Combined oxidative phosphorylation deficiency, Mitochondrial complex deficiency, Mitochondrial disease |
| ATP5MK | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| BCS1L | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| COA3 | 3 / 14 | Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, Mitochondrial disease |
| COX14 | 3 / 14 | Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, Mitochondrial disease |
| COX20 | 3 / 14 | Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, Mitochondrial disease |
| COX5A | 3 / 14 | Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, mitochondrial disease |
| COX6A2 | 3 / 14 | Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, Mitochondrial disease |
| COX6B1 | 3 / 14 | Cytochrome c oxidase deficiency, Mitochondrial complex deficiency, Mitochondrial disease |
| COXFA4 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| CYTB | 3 / 14 | Mitochondrial complex deficiency, Mitochondrial disease, Mitochondrial encephalomyopathy |
| DNM1L | 3 / 14 | Leigh syndrome, Mitochondrial disease, Mitochondrial encephalomyopathy |
| EARS2 | 3 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, Mitochondrial disease |
| FBXL4 | 3 / 14 | Leigh syndrome, Mitochondrial disease, Mitochondrial encephalomyopathy |
| GTPBP3 | 3 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, Mitochondrial disease |
| LONP1 | 3 / 14 | Codas syndrome, Leigh syndrome, Mitochondrial encephalomyopathy |
| MRPS25 | 3 / 14 | Combined oxidative phosphorylation deficiency, Mitochondrial disease, Mitochondrial encephalomyopathy |
| MRPS34 | 3 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, Mitochondrial disease |
| MTFMT | 3 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, Mitochondrial complex deficiency |
| NARS2 | 3 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, Mitochondrial disease |
| ND2 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| ND3 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| ND5 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFA1 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| NDUFA10 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFA12 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| NDUFA13 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| NDUFA2 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFA9 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| NDUFAF2 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFAF3 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFAF4 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFAF5 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFAF6 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFAF8 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFB8 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| NDUFC2 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFS1 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFS3 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| NDUFS4 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFS7 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFS8 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| NDUFV1 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| NUBPL | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| POLG | 3 / 14 | Leigh syndrome, Mitochondrial disease, Mitochondrial encephalomyopathy |
| SDHA | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| SDHAF1 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| TARS2 | 3 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, mitochondrial disease |
| TIMMDC1 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| TRMT5 | 3 / 14 | Combined oxidative phosphorylation deficiency, Mitochondrial disease, Peripheral neuropathy with variable spasticity, exercise intolerance, and developmental delay |
| TSFM | 3 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome, Mitochondrial disease |
| TTC19 | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, Mitochondrial disease |
| TYMP | 3 / 14 | Mitochondrial complex deficiency, Mitochondrial disease, Mitochondrial encephalomyopathy |
| UQCRQ | 3 / 14 | Leigh syndrome, Mitochondrial complex deficiency, mitochondrial disease |
| AARS2 | 2 / 14 | Combined oxidative phosphorylation deficiency, Mitochondrial disease |
| AIFM1 | 2 / 14 | Combined oxidative phosphorylation deficiency, Leigh syndrome |
| ATP5F1D | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| ATP5F1E | 2 / 14 | Mitochondrial complex deficiency, mitochondrial disease |
| ATP5MC3 | 2 / 14 | Early-onset dystonia with spastic paraplegia, mitochondrial disease |
| ATP5PO | 2 / 14 | Mitochondrial complex deficiency, mitochondrial disease |
| ATP6 | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| ATP8 | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| ATPAF2 | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| C1QBP | 2 / 14 | Combined oxidative phosphorylation deficiency, Mitochondrial disease |
| CARS2 | 2 / 14 | Combined oxidative phosphorylation deficiency, Mitochondrial disease |
| COA8 | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| COQ2 | 2 / 14 | Leigh syndrome, Mitochondrial disease |
| COQ9 | 2 / 14 | Leigh syndrome, Mitochondrial disease |
| COX1 | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| COX11 | 2 / 14 | Mitochondrial complex deficiency, mitochondrial disease |
| COX16 | 2 / 14 | Mitochondrial complex deficiency, mitochondrial disease |
| COX2 | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| COX3 | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| COX4I2 | 2 / 14 | Mitochondrial disease, Pancreatic insufficiency syndrome |
| CRLS1 | 2 / 14 | Combined oxidative phosphorylation deficiency, mitochondrial disease |
| CYC1 | 2 / 14 | Mitochondrial complex deficiency, Mitochondrial disease |
| ECHS1 | 2 / 14 | Leigh syndrome, mitochondrial short-chain enoyl-coa hydratase 1 deficiency |
| ELAC2 | 2 / 14 | Combined oxidative phosphorylation deficiency, Mitochondrial disease |
| EME2 | 2 / 14 | Combined oxidative phosphorylation deficiency, Mitochondrial disease |
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 ⇵ |
|---|---|---|---|---|---|
| Respiratory electron transport | Reactome | 59 / 83 | 27.0× | 5.99e-76 | 6.61e-71 ✓ sig. |
| Oxidative phosphorylation | KEGG | 68 / 137 | 18.9× | 5.28e-72 | 2.41e-67 ✓ sig. |
| Thermogenesis | KEGG | 82 / 234 | 13.3× | 6.55e-72 | 2.41e-67 ✓ sig. |
| Diabetic cardiomyopathy | KEGG | 69 / 205 | 12.8× | 1.01e-58 | 2.78e-54 ✓ sig. |
| Complex I biogenesis | Reactome | 42 / 55 | 29.0× | 2.97e-56 | 5.46e-52 ✓ sig. |
| Chemical carcinogenesis - reactive oxygen species | KEGG | 66 / 227 | 11.1× | 2.29e-51 | 3.61e-47 ✓ sig. |
| Parkinson disease | KEGG | 69 / 268 | 9.8× | 8.46e-50 | 1.17e-45 ✓ sig. |
| Huntington disease | KEGG | 68 / 308 | 8.4× | 2.79e-44 | 2.59e-40 ✓ sig. |
| Prion disease | KEGG | 65 / 275 | 9.0× | 2.81e-44 | 2.59e-40 ✓ sig. |
| Non-alcoholic fatty liver disease | KEGG | 51 / 157 | 12.3× | 2.65e-42 | 2.09e-38 ✓ sig. |
| Amyotrophic lateral sclerosis | KEGG | 70 / 368 | 7.2× | 5.00e-41 | 3.68e-37 ✓ sig. |
| Alzheimer disease | KEGG | 68 / 388 | 6.7× | 1.97e-37 | 1.09e-33 ✓ sig. |
| Pathways of neurodegeneration - multiple diseases | KEGG | 69 / 480 | 5.5× | 2.47e-32 | 9.08e-29 ✓ sig. |
| Metabolic pathways | KEGG | 117 / 1,563 | 2.8× | 4.27e-28 | 1.07e-24 ✓ sig. |
| Retrograde endocannabinoid signaling | KEGG | 35 / 149 | 8.9× | 7.79e-24 | 1.20e-20 ✓ 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 ⇵ |
|---|---|---|---|---|---|
| proton motive force-driven mitochondrial ATP synthesis | GO:0042776 | 43 / 64 | 39.7× | 1.03e-61 | 4.00e-57 ✓ sig. |
| aerobic respiration | GO:0009060 | 43 / 68 | 37.4× | 6.26e-60 | 2.19e-55 ✓ sig. |
| mitochondrial electron transport, NADH to ubiquinone | GO:0006120 | 35 / 47 | 44.0× | 6.18e-53 | 1.44e-48 ✓ sig. |
| proton transmembrane transport | GO:1902600 | 52 / 181 | 17.0× | 1.36e-49 | 2.81e-45 ✓ sig. |
| mitochondrial respiratory chain complex I assembly | GO:0032981 | 31 / 40 | 45.8× | 6.33e-48 | 1.05e-43 ✓ sig. |
| mitochondrial translation | GO:0032543 | 26 / 93 | 16.5× | 8.64e-25 | 2.63e-21 ✓ sig. |
| cellular respiration | GO:0045333 | 19 / 41 | 27.4× | 2.20e-23 | 5.83e-20 ✓ sig. |
| translation | GO:0006412 | 37 / 310 | 7.1× | 6.67e-21 | 1.23e-17 ✓ sig. |
| mitochondrial cytochrome c oxidase assembly | GO:0033617 | 15 / 27 | 32.9× | 2.75e-20 | 4.76e-17 ✓ sig. |
| tRNA aminoacylation for protein translation | GO:0006418 | 16 / 36 | 26.3× | 1.65e-19 | 2.46e-16 ✓ sig. |
| respiratory chain complex IV assembly | GO:0008535 | 9 / 9 | 59.1× | 1.01e-16 | 9.76e-14 ✓ sig. |
| mitochondrial electron transport, cytochrome c to oxygen | GO:0006123 | 12 / 23 | 30.9× | 5.08e-16 | 4.21e-13 ✓ sig. |
| tricarboxylic acid cycle | GO:0006099 | 13 / 33 | 23.3× | 3.06e-15 | 2.22e-12 ✓ sig. |
| oxidative phosphorylation | GO:0006119 | 12 / 27 | 26.3× | 6.15e-15 | 4.13e-12 ✓ sig. |
| mitochondrion organization | GO:0007005 | 20 / 130 | 9.1× | 6.26e-14 | 3.56e-11 ✓ sig. |