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 174
9
Diseases
7
Unique genes
0.288
Avg. similarity score
Childhood ataxia with cns hypomyelination
Most-connected disease (8 links)
Disease
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Childhood ataxia with cns hypomyelination
Congenital or early infantile cach syndrome
Cree leukoencephalopathy
Vanishing white matter disease
leukoencephalopathy with vanishing white matter 1
leukoencephalopathy with vanishing white matter 2
leukoencephalopathy with vanishing white matter 3
leukoencephalopathy with vanishing white matter 4
leukoencephalopathy with vanishing white matter 5
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Childhood ataxia with cns hypomyelination | 8 | 8 | 7 |
| Congenital or early infantile cach syndrome | 8 | 8 | 5 |
| Cree leukoencephalopathy | 8 | 8 | 5 |
| Vanishing white matter disease | 8 | 8 | 5 |
| leukoencephalopathy with vanishing white matter 1 | 4 | 4 | 1 |
| leukoencephalopathy with vanishing white matter 2 | 4 | 4 | 1 |
| leukoencephalopathy with vanishing white matter 3 | 4 | 4 | 1 |
| leukoencephalopathy with vanishing white matter 4 | 4 | 4 | 1 |
| leukoencephalopathy with vanishing white matter 5 | 4 | 4 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| EIF2B1 | 5 / 9 | Childhood ataxia with cns hypomyelination, Congenital or early infantile cach syndrome, Cree leukoencephalopathy, leukoencephalopathy with vanishing white matter 1 and 1 more |
| EIF2B2 | 5 / 9 | Childhood ataxia with cns hypomyelination, Congenital or early infantile cach syndrome, Cree leukoencephalopathy, leukoencephalopathy with vanishing white matter 2 and 1 more |
| EIF2B3 | 5 / 9 | Childhood ataxia with cns hypomyelination, Congenital or early infantile cach syndrome, Cree leukoencephalopathy, leukoencephalopathy with vanishing white matter 3 and 1 more |
| EIF2B4 | 5 / 9 | Childhood ataxia with cns hypomyelination, Congenital or early infantile cach syndrome, Cree leukoencephalopathy, leukoencephalopathy with vanishing white matter 4 and 1 more |
| EIF2B5 | 5 / 9 | Childhood ataxia with cns hypomyelination, Congenital or early infantile cach syndrome, Cree leukoencephalopathy, leukoencephalopathy with vanishing white matter 5 and 1 more |
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 ⇵ |
|---|---|---|---|---|---|
| Recycling of eIF2:GDP | Reactome | 5 / 8 | 1,072× | 5.65e-16 | 2.29e-13 ✓ sig. |
| Herpes simplex virus 1 infection | KEGG | 5 / 182 | 47.1× | 1.55e-8 | 1.28e-6 ✓ sig. |
| Regulation of cytoskeletal remodeling and cell spreading by IPP complex components | Reactome | 1 / 8 | 214× | 4.65e-3 | 4.18e-2 ✓ sig. |
| Initiation of Nuclear Envelope (NE) Reformation | Reactome | 1 / 19 | 90.3× | 1.10e-2 | 7.27e-2 |
| G beta:gamma signalling through CDC42 | Reactome | 1 / 20 | 85.8× | 1.16e-2 | 7.50e-2 |
| NRAGE signals death through JNK | Reactome | 1 / 55 | 31.2× | 3.16e-2 | 1.33e-1 |
| Pancreatic cancer | KEGG | 1 / 77 | 22.3× | 4.40e-2 | 1.60e-1 |
| G alpha (12/13) signalling events | Reactome | 1 / 80 | 21.4× | 4.57e-2 | 1.63e-1 |
| Rho GTPase cycle | Reactome | 1 / 138 | 12.4× | 7.77e-2 | 2.16e-1 |
| Regulation of actin cytoskeleton | KEGG | 1 / 232 | 7.4× | 1.28e-1 | 2.83e-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 ⇵ |
|---|---|---|---|---|---|
| cytoplasmic translational initiation | GO:0002183 | 5 / 27 | 494× | 8.91e-14 | 4.95e-11 ✓ sig. |
| oligodendrocyte development | GO:0014003 | 5 / 28 | 477× | 1.09e-13 | 5.93e-11 ✓ sig. |
| response to heat | GO:0009408 | 5 / 41 | 326× | 8.27e-13 | 3.86e-10 ✓ sig. |
| response to peptide hormone | GO:0043434 | 5 / 50 | 267× | 2.33e-12 | 9.90e-10 ✓ sig. |
| response to glucose | GO:0009749 | 5 / 68 | 196× | 1.15e-11 | 4.18e-9 ✓ sig. |
| translational initiation | GO:0006413 | 5 / 75 | 178× | 1.90e-11 | 6.53e-9 ✓ sig. |
| T cell receptor signaling pathway | GO:0050852 | 5 / 121 | 110× | 2.18e-10 | 5.76e-8 ✓ sig. |
| translation | GO:0006412 | 5 / 310 | 43.1× | 2.49e-8 | 3.76e-6 ✓ sig. |
| central nervous system development | GO:0007417 | 4 / 158 | 67.6× | 1.69e-7 | 1.88e-5 ✓ sig. |
| ovarian follicle development | GO:0001541 | 3 / 47 | 170× | 5.18e-7 | 4.81e-5 ✓ sig. |
| myelination | GO:0042552 | 3 / 73 | 110× | 1.98e-6 | 1.43e-4 ✓ sig. |
| animal organ development | GO:0048513 | 2 / 102 | 52.3× | 6.09e-4 | 1.10e-2 ✓ sig. |
| regulation of catalytic activity | GO:0050790 | 1 / 5 | 534× | 1.87e-3 | 2.19e-2 ✓ sig. |
| negative regulation of phosphorylation | GO:0042326 | 1 / 6 | 445× | 2.25e-3 | 2.41e-2 ✓ sig. |
| mitotic nuclear membrane reassembly | GO:0007084 | 1 / 10 | 267× | 3.74e-3 | 3.18e-2 ✓ sig. |