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 306
6
Diseases
5
Unique genes
0.283
Avg. similarity score
Rh deficiency syndrome
Most-connected disease (5 links)
Disease
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Rh deficiency syndrome
Alpha-1 antichymotrypsin deficiency
Hemolytic disease of fetus and newborn
Rh isoimmunization
Rh-null, amorph type
Rh-null, regulator type
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Rh deficiency syndrome | 5 | 5 | 3 |
| Alpha-1 antichymotrypsin deficiency | 3 | 3 | 2 |
| Hemolytic disease of fetus and newborn | 3 | 3 | 2 |
| Rh isoimmunization | 3 | 3 | 2 |
| Rh-null, amorph type | 1 | 1 | 1 |
| Rh-null, regulator type | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| RHD | 4 / 6 | Alpha-1 antichymotrypsin deficiency, Hemolytic disease of fetus and newborn, Rh deficiency syndrome, Rh isoimmunization |
| RHAG | 2 / 6 | Rh deficiency syndrome, Rh-null, regulator type |
| RHCE | 2 / 6 | Rh deficiency syndrome, Rh-null, amorph type |
| RSRP1 | 2 / 6 | Hemolytic disease of fetus and newborn, Rh isoimmunization |
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 ⇵ |
|---|---|---|---|---|---|
| Rhesus blood group biosynthesis | Reactome | 2 / 2 | 2,402× | 1.39e-7 | 8.69e-6 ✓ sig. |
| Defective RHAG causes regulator type Rh-null hemolytic anemia (RHN) | Reactome | 1 / 1 | 2,402× | 4.16e-4 | 6.90e-3 ✓ sig. |
| Rhesus glycoproteins mediate ammonium transport. | Reactome | 1 / 3 | 801× | 1.25e-3 | 1.60e-2 ✓ sig. |
| Erythrocytes take up oxygen and release carbon dioxide | Reactome | 1 / 9 | 267× | 3.74e-3 | 3.59e-2 ✓ sig. |
| Erythrocytes take up carbon dioxide and release oxygen | Reactome | 1 / 13 | 185× | 5.40e-3 | 4.60e-2 ✓ sig. |
| Platelet degranulation | Reactome | 1 / 123 | 19.5× | 5.02e-2 | 1.72e-1 |
| Neutrophil degranulation | Reactome | 1 / 480 | 5.0× | 1.85e-1 | 3.48e-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 ⇵ |
|---|---|---|---|---|---|
| ammonium homeostasis | GO:0097272 | 3 / 6 | 1,869× | 1.84e-10 | 4.96e-8 ✓ sig. |
| ammonium transmembrane transport | GO:0072488 | 3 / 11 | 1,019× | 1.52e-9 | 3.26e-7 ✓ sig. |
| methylammonium transmembrane transport | GO:0072489 | 1 / 2 | 1,869× | 5.35e-4 | 9.98e-3 ✓ sig. |
| intracellular monoatomic ion homeostasis | GO:0006873 | 1 / 4 | 934× | 1.07e-3 | 1.57e-2 ✓ sig. |
| carbon dioxide transmembrane transport | GO:0035378 | 1 / 5 | 747× | 1.34e-3 | 1.79e-2 ✓ sig. |
| carbon dioxide transport | GO:0015670 | 1 / 13 | 287× | 3.47e-3 | 3.06e-2 ✓ sig. |
| maintenance of gastrointestinal epithelium | GO:0030277 | 1 / 16 | 234× | 4.27e-3 | 3.38e-2 ✓ sig. |
| inorganic cation transmembrane transport | GO:0098662 | 1 / 23 | 162× | 6.14e-3 | 4.07e-2 ✓ sig. |
| multicellular organismal-level iron ion homeostasis | GO:0060586 | 1 / 28 | 133× | 7.47e-3 | 4.46e-2 ✓ sig. |
| spliceosomal complex assembly | GO:0000245 | 1 / 28 | 133× | 7.47e-3 | 4.46e-2 ✓ sig. |
| erythrocyte development | GO:0048821 | 1 / 32 | 117× | 8.53e-3 | 4.72e-2 ✓ sig. |
| bicarbonate transport | GO:0015701 | 1 / 33 | 113× | 8.80e-3 | 4.79e-2 ✓ sig. |
| acute-phase response | GO:0006953 | 1 / 37 | 101× | 9.86e-3 | 5.09e-2 |
| regulation of lipid metabolic process | GO:0019216 | 1 / 41 | 91.2× | 1.09e-2 | 5.37e-2 |
| response to cytokine | GO:0034097 | 1 / 56 | 66.7× | 1.49e-2 | 6.20e-2 |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Hemolytic disease of fetus and newborn | Rh isoimmunization | 0.667 | 2 | 8.44e-9 | 7.20e-8 ✓ sig. |
| Rh deficiency syndrome | Rh-null, regulator type | 0.250 | 1 | 1.95e-4 | 5.28e-4 ✓ sig. |
| Rh deficiency syndrome | Rh-null, amorph type | 0.250 | 1 | 1.95e-4 | 5.28e-4 ✓ sig. |
| Alpha-1 antichymotrypsin deficiency | Hemolytic disease of fetus and newborn | 0.250 | 1 | 2.60e-4 | 6.40e-4 ✓ sig. |
| Alpha-1 antichymotrypsin deficiency | Rh isoimmunization | 0.250 | 1 | 2.60e-4 | 6.40e-4 ✓ sig. |
| Alpha-1 antichymotrypsin deficiency | Rh deficiency syndrome | 0.200 | 1 | 3.90e-4 | 8.52e-4 ✓ sig. |
| Hemolytic disease of fetus and newborn | Rh deficiency syndrome | 0.200 | 1 | 3.90e-4 | 8.52e-4 ✓ sig. |
| Rh deficiency syndrome | Rh isoimmunization | 0.200 | 1 | 3.90e-4 | 8.52e-4 ✓ sig. |