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 553
5
Diseases
4
Unique genes
0.328
Avg. similarity score
Combined molybdoflavoprotein enzyme deficiency
Most-connected disease (4 links)
Disease
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Combined molybdoflavoprotein enzyme deficiency
Glycoprotein ia deficiency
Molybdenum cofactor deficiency b
Sulfite oxidase deficiency due to molybdenum cofactor deficiency type A
Sulfite oxidase deficiency due to molybdenum cofactor deficiency type B1
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Combined molybdoflavoprotein enzyme deficiency | 4 | 4 | 4 |
| Glycoprotein ia deficiency | 4 | 4 | 2 |
| Molybdenum cofactor deficiency b | 4 | 4 | 1 |
| Sulfite oxidase deficiency due to molybdenum cofactor deficiency type A | 4 | 4 | 2 |
| Sulfite oxidase deficiency due to molybdenum cofactor deficiency type B1 | 4 | 4 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| MOCS2 | 5 / 5 | Combined molybdoflavoprotein enzyme deficiency, Glycoprotein ia deficiency, Molybdenum cofactor deficiency b, Sulfite oxidase deficiency due to molybdenum cofactor deficiency type A and 1 more |
| ITGA2 | 2 / 5 | Combined molybdoflavoprotein enzyme deficiency, Glycoprotein ia deficiency |
| MOCS1 | 2 / 5 | Combined molybdoflavoprotein enzyme deficiency, Sulfite oxidase deficiency due to molybdenum cofactor deficiency type A |
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 ⇵ |
|---|---|---|---|---|---|
| Molybdenum cofactor biosynthesis | Reactome | 2 / 6 | 1,001× | 1.25e-6 | 5.05e-5 ✓ sig. |
| Folate biosynthesis | KEGG | 2 / 28 | 214× | 3.14e-5 | 7.52e-4 ✓ sig. |
| Virion - Rotavirus | KEGG | 1 / 2 | 1,501× | 6.66e-4 | 8.31e-3 ✓ sig. |
| Biosynthesis of cofactors | KEGG | 2 / 154 | 39.0× | 9.64e-4 | 1.10e-2 ✓ sig. |
| Cytoskeleton in muscle cells | KEGG | 2 / 232 | 25.9× | 2.17e-3 | 2.02e-2 ✓ sig. |
| Sulfur relay system | KEGG | 1 / 8 | 375× | 2.66e-3 | 2.34e-2 ✓ sig. |
| Syndecan interactions | Reactome | 1 / 16 | 188× | 5.32e-3 | 3.80e-2 ✓ sig. |
| Laminin interactions | Reactome | 1 / 28 | 107× | 9.29e-3 | 5.43e-2 |
| MET activates PTK2 signaling | Reactome | 1 / 30 | 100× | 9.96e-3 | 5.67e-2 |
| ECM proteoglycans | Reactome | 1 / 51 | 58.9× | 1.69e-2 | 7.78e-2 |
| Integrin cell surface interactions | Reactome | 1 / 81 | 37.1× | 2.67e-2 | 1.01e-1 |
| Arrhythmogenic right ventricular cardiomyopathy | KEGG | 1 / 86 | 34.9× | 2.83e-2 | 1.05e-1 |
| ECM-receptor interaction | KEGG | 1 / 89 | 33.7× | 2.93e-2 | 1.07e-1 |
| Small cell lung cancer | KEGG | 1 / 93 | 32.3× | 3.06e-2 | 1.10e-1 |
| Hypertrophic cardiomyopathy | KEGG | 1 / 99 | 30.3× | 3.26e-2 | 1.13e-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 ⇵ |
|---|---|---|---|---|---|
| molybdopterin cofactor biosynthetic process | GO:0032324 | 2 / 4 | 2,336× | 2.06e-7 | 2.32e-5 ✓ sig. |
| Mo-molybdopterin cofactor biosynthetic process | GO:0006777 | 2 / 6 | 1,557× | 5.15e-7 | 5.00e-5 ✓ sig. |
| hypotonic response | GO:0006971 | 1 / 3 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| regulation of non-canonical Wnt signaling pathway | GO:2000050 | 1 / 3 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| response to L-ascorbic acid | GO:0033591 | 1 / 4 | 1,168× | 8.56e-4 | 1.33e-2 ✓ sig. |
| response to parathyroid hormone | GO:0071107 | 1 / 5 | 934× | 1.07e-3 | 1.51e-2 ✓ sig. |
| collagen-activated signaling pathway | GO:0038065 | 1 / 6 | 779× | 1.28e-3 | 1.67e-2 ✓ sig. |
| positive regulation of transmission of nerve impulse | GO:0051971 | 1 / 6 | 779× | 1.28e-3 | 1.67e-2 ✓ sig. |
| podocyte cell migration | GO:0090521 | 1 / 7 | 667× | 1.50e-3 | 1.82e-2 ✓ sig. |
| dorsal spinal cord development | GO:0021516 | 1 / 8 | 584× | 1.71e-3 | 1.96e-2 ✓ sig. |
| substrate-dependent cell migration | GO:0006929 | 1 / 8 | 584× | 1.71e-3 | 1.96e-2 ✓ sig. |
| positive regulation of cell projection organization | GO:0031346 | 1 / 8 | 584× | 1.71e-3 | 1.96e-2 ✓ sig. |
| response to amine | GO:0014075 | 1 / 10 | 467× | 2.14e-3 | 2.19e-2 ✓ sig. |
| positive regulation of positive chemotaxis | GO:0050927 | 1 / 11 | 425× | 2.35e-3 | 2.30e-2 ✓ sig. |
| positive regulation of phagocytosis, engulfment | GO:0060100 | 1 / 12 | 389× | 2.57e-3 | 2.40e-2 ✓ sig. |