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 12
27
Diseases
290
Unique genes
0.153
Avg. similarity score
Spinocerebellar ataxia
Most-connected disease (12 links)
Disease
Searched: Mitochondrial encephalomyopathy with lactic acidosis and stroke-like episodes syndrome
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Mitochondrial encephalomyopathy with lactic acidosis and stroke-like episodes syndrome
Spinocerebellar ataxia
Cleft palate and bilateral cleft lip
Melas syndrome
Neuropathy, ataxia, and retinitis pigmentosa
Cerebellar ataxia
Postaxial polydactyly
Leber hereditary optic neuropathy
Optic neuropathy
Congenital cardiomyopathy
Leber optic atrophy and dystonia
ROD-CONE DYSTROPHY
Periodic paralysis with later-onset distal motor neuropathy
Spastic ataxia
Autosomal recessive spinocerebellar ataxia 16
Myoclonic epilepsy with ragged red fibers
Neurodevelopmental disorder with motor abnormalities, seizures, and facial dysmorphism
Spinocerebellar ataxia, autosomal recessive 28
Spinocerebellar ataxia, autosomal recessive 30
Spinocerebellar ataxia, autosomal recessive, 11
Cayman type cerebellar ataxia
Neurodevelopmental disorder with microcephaly and brain abnormalities
Spinocerebellar ataxia and intellectual disability
Spinocerebellar ataxia type 13
Spinocerebellar ataxia, autosomal recessive 27
Spinocerebellar ataxia, autosomal recessive, 22
Spinocerebellar ataxia, autosomal recessive, with axonal neuropathy 3
Member diseases (most connected first ‐ the cluster's core)
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| ND4 | 10 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Congenital cardiomyopathy, Leber hereditary optic neuropathy and 6 more |
| ND5 | 10 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Congenital cardiomyopathy, Leber hereditary optic neuropathy and 6 more |
| ATP8 | 9 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Melas syndrome and 5 more |
| ND1 | 9 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Melas syndrome and 5 more |
| ATP6 | 8 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Melas syndrome and 4 more |
| COX3 | 8 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Melas syndrome and 4 more |
| ND3 | 8 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Leber optic atrophy and dystonia and 4 more |
| COX1 | 7 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Melas syndrome and 3 more |
| COX2 | 7 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Melas syndrome and 3 more |
| ND2 | 7 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Melas syndrome and 3 more |
| ND4L | 6 / 27 | Cerebellar ataxia, Cleft palate and bilateral cleft lip, Leber hereditary optic neuropathy, Neuropathy, ataxia, and retinitis pigmentosa and 2 more |
| AFG3L2 | 3 / 27 | Cerebellar ataxia, Spastic ataxia, Spinocerebellar ataxia |
| CACNA1A | 3 / 27 | Cerebellar ataxia, Spastic ataxia, Spinocerebellar ataxia |
| CACNA1G | 3 / 27 | Cerebellar ataxia, Spastic ataxia, Spinocerebellar ataxia |
| IL1A | 3 / 27 | Leber hereditary optic neuropathy, Melas syndrome, Myoclonic epilepsy with ragged red fibers |
| IL1B | 3 / 27 | Leber hereditary optic neuropathy, Melas syndrome, Myoclonic epilepsy with ragged red fibers |
| ITPR1 | 3 / 27 | Cerebellar ataxia, Spastic ataxia, Spinocerebellar ataxia |
| ND6 | 3 / 27 | Leber hereditary optic neuropathy, Melas syndrome, Mitochondrial encephalomyopathy with lactic acidosis and stroke-like episodes syndrome |
| PITRM1 | 3 / 27 | Cerebellar ataxia, Spinocerebellar ataxia, Spinocerebellar ataxia, autosomal recessive 30 |
| PNPLA6 | 3 / 27 | Cerebellar ataxia, ROD-CONE DYSTROPHY, Spastic ataxia |
| POLG | 3 / 27 | Cerebellar ataxia, Melas syndrome, Spinocerebellar ataxia |
| PUM1 | 3 / 27 | Neurodevelopmental disorder with motor abnormalities, seizures, and facial dysmorphism, Spastic ataxia, Spinocerebellar ataxia |
| SETX | 3 / 27 | Cerebellar ataxia, Spastic ataxia, Spinocerebellar ataxia |
| STUB1 | 3 / 27 | Autosomal recessive spinocerebellar ataxia 16, Cerebellar ataxia, Spinocerebellar ataxia |
| SYNE1 | 3 / 27 | Cerebellar ataxia, Spastic ataxia, Spinocerebellar ataxia |
| SYT14 | 3 / 27 | Cerebellar ataxia, Spinocerebellar ataxia, Spinocerebellar ataxia, autosomal recessive, 11 |
| TDP1 | 3 / 27 | Cerebellar ataxia, Neuropathy, ataxia, and retinitis pigmentosa, Spinocerebellar ataxia |
| THG1L | 3 / 27 | Cerebellar ataxia, Spinocerebellar ataxia, Spinocerebellar ataxia, autosomal recessive 28 |
| ANO10 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| ATCAY | 2 / 27 | Cayman type cerebellar ataxia, Cerebellar ataxia |
| BBIP1 | 2 / 27 | Postaxial polydactyly, ROD-CONE DYSTROPHY |
| CA8 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| CCDC88C | 2 / 27 | Spastic ataxia, Spinocerebellar ataxia |
| CEP290 | 2 / 27 | ROD-CONE DYSTROPHY, Spastic ataxia |
| COA7 | 2 / 27 | Spinocerebellar ataxia, Spinocerebellar ataxia, autosomal recessive, with axonal neuropathy 3 |
| COQ4 | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| COQ8A | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| CWF19L1 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| CYTB | 2 / 27 | Leber hereditary optic neuropathy, Melas syndrome |
| DAB1 | 2 / 27 | Spastic ataxia, Spinocerebellar ataxia |
| DAGLA | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| DNMT1 | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| ELOVL4 | 2 / 27 | Spastic ataxia, Spinocerebellar ataxia |
| ERCC4 | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| ESR1 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| FAT2 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| FGF14 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| FLNC | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| GDAP2 | 2 / 27 | Spinocerebellar ataxia, Spinocerebellar ataxia, autosomal recessive 27 |
| GRM1 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| HARS1 | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| JMJD8 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| KCNC3 | 2 / 27 | Spinocerebellar ataxia, Spinocerebellar ataxia type 13 |
| KIF1C | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| KIF7 | 2 / 27 | Cerebellar ataxia, Postaxial polydactyly |
| LRAT | 2 / 27 | Leber hereditary optic neuropathy, ROD-CONE DYSTROPHY |
| LYST | 2 / 27 | Optic neuropathy, Spastic ataxia |
| MTCL1 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| NOP56 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| NPTX1 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| NRDC | 2 / 27 | Neurodevelopmental disorder with microcephaly and brain abnormalities, Optic neuropathy |
| PDYN | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| PEX6 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| PIGL | 2 / 27 | Cleft palate and bilateral cleft lip, Postaxial polydactyly |
| PIK3R5 | 2 / 27 | Spastic ataxia, Spinocerebellar ataxia |
| PLA2G6 | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| PMPCA | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| POLR3A | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| PRDX3 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| PRKCG | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| RHBDL1 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| RP1 | 2 / 27 | Leber hereditary optic neuropathy, ROD-CONE DYSTROPHY |
| RPE65 | 2 / 27 | Leber hereditary optic neuropathy, ROD-CONE DYSTROPHY |
| RUBCN | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| SCN8A | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| SEPSECS | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| SLC25A46 | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| SLC36A1 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| SNX14 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| SOD2 | 2 / 27 | Leber hereditary optic neuropathy, Melas syndrome |
| SPTBN2 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| STXBP1 | 2 / 27 | Cerebellar ataxia, Spastic ataxia |
| TDP2 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| TMEM240 | 2 / 27 | Spinocerebellar ataxia, Spinocerebellar ataxia and intellectual disability |
| TTBK2 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| TUBB6 | 2 / 27 | Spastic ataxia, Spinocerebellar ataxia |
| VPS13D | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| VPS41 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| VWA3B | 2 / 27 | Spinocerebellar ataxia, Spinocerebellar ataxia, autosomal recessive, 22 |
| WDR24 | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
| WWOX | 2 / 27 | Cerebellar ataxia, Spinocerebellar ataxia |
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 ⇵ |
|---|---|---|---|---|---|
| Spinocerebellar ataxia | KEGG | 24 / 144 | 6.9× | 5.95e-14 | 1.46e-11 ✓ sig. |
| Pathways of neurodegeneration - multiple diseases | KEGG | 40 / 480 | 3.5× | 5.45e-12 | 8.80e-10 ✓ sig. |
| Parkinson disease | KEGG | 27 / 268 | 4.2× | 3.08e-10 | 3.22e-8 ✓ sig. |
| Prion disease | KEGG | 27 / 275 | 4.1× | 5.51e-10 | 5.46e-8 ✓ sig. |
| Oxidative phosphorylation | KEGG | 19 / 137 | 5.7× | 7.07e-10 | 6.79e-8 ✓ sig. |
| Respiratory electron transport | Reactome | 15 / 83 | 7.5× | 1.07e-9 | 9.92e-8 ✓ sig. |
| Huntington disease | KEGG | 28 / 308 | 3.8× | 1.52e-9 | 1.36e-7 ✓ sig. |
| Chemical carcinogenesis - reactive oxygen species | KEGG | 23 / 227 | 4.2× | 6.05e-9 | 4.72e-7 ✓ sig. |
| Diabetic cardiomyopathy | KEGG | 21 / 205 | 4.2× | 2.34e-8 | 1.57e-6 ✓ sig. |
| Complex I biogenesis | Reactome | 11 / 55 | 8.3× | 6.27e-8 | 3.72e-6 ✓ sig. |
| Hedgehog 'off' state | Reactome | 11 / 56 | 8.1× | 7.63e-8 | 4.41e-6 ✓ sig. |
| Amyotrophic lateral sclerosis | KEGG | 27 / 368 | 3.0× | 2.69e-7 | 1.33e-5 ✓ sig. |
| Retrograde endocannabinoid signaling | KEGG | 16 / 149 | 4.4× | 6.02e-7 | 2.68e-5 ✓ sig. |
| Alzheimer disease | KEGG | 27 / 388 | 2.9× | 7.66e-7 | 3.30e-5 ✓ sig. |
| Thermogenesis | KEGG | 20 / 234 | 3.5× | 9.74e-7 | 4.07e-5 ✓ 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 | 14 / 64 | 14.1× | 8.21e-13 | 3.91e-10 ✓ sig. |
| aerobic respiration | GO:0009060 | 14 / 68 | 13.3× | 2.00e-12 | 8.99e-10 ✓ sig. |
| proton transmembrane transport | GO:1902600 | 19 / 181 | 6.8× | 5.97e-11 | 1.93e-8 ✓ sig. |
| mitochondrial electron transport, NADH to ubiquinone | GO:0006120 | 11 / 47 | 15.1× | 1.10e-10 | 3.34e-8 ✓ sig. |
| visual perception | GO:0007601 | 18 / 215 | 5.4× | 7.50e-9 | 1.37e-6 ✓ sig. |
| ATP synthesis coupled electron transport | GO:0042773 | 5 / 7 | 46.0× | 1.78e-8 | 2.91e-6 ✓ sig. |
| mitochondrial respiratory chain complex I assembly | GO:0032981 | 8 / 40 | 12.9× | 1.53e-7 | 1.82e-5 ✓ sig. |
| response to copper ion | GO:0046688 | 5 / 12 | 26.8× | 6.30e-7 | 5.90e-5 ✓ sig. |
| mitochondrion organization | GO:0007005 | 12 / 130 | 5.9× | 8.79e-7 | 7.70e-5 ✓ sig. |
| cilium assembly | GO:0060271 | 16 / 237 | 4.4× | 9.77e-7 | 8.44e-5 ✓ sig. |
| non-motile cilium assembly | GO:1905515 | 8 / 57 | 9.0× | 2.61e-6 | 1.88e-4 ✓ sig. |
| response to oxidative stress | GO:0006979 | 12 / 146 | 5.3× | 3.01e-6 | 2.10e-4 ✓ sig. |
| monoatomic ion transmembrane transport | GO:0034220 | 20 / 404 | 3.2× | 5.56e-6 | 3.45e-4 ✓ sig. |
| respiratory chain complex IV assembly | GO:0008535 | 4 / 9 | 28.6× | 6.73e-6 | 4.00e-4 ✓ sig. |
| retina development in camera-type eye | GO:0060041 | 9 / 85 | 6.8× | 6.77e-6 | 4.01e-4 ✓ sig. |