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 519
5
Diseases
6
Unique genes
0.229
Avg. similarity score
Microcytic anemia
Most-connected disease (4 links)
Disease
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Microcytic anemia
Chronic recurrent multifocal osteomyelitis with congenital dyserythropoietic anemia
Majeed syndrome
3-methylglutaconic aciduria, type vii, with cataracts, neurologic involvement and neutropenia
Iron-refractory iron deficiency anemia
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Microcytic anemia | 4 | 4 | 5 |
| Chronic recurrent multifocal osteomyelitis with congenital dyserythropoietic anemia | 2 | 2 | 1 |
| Majeed syndrome | 2 | 2 | 1 |
| 3-methylglutaconic aciduria, type vii, with cataracts, neurologic involvement and neutropenia | 1 | 1 | 1 |
| Iron-refractory iron deficiency anemia | 1 | 1 | 2 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| LPIN2 | 3 / 5 | Chronic recurrent multifocal osteomyelitis with congenital dyserythropoietic anemia, Majeed syndrome, Microcytic anemia |
| CLPB | 2 / 5 | 3-methylglutaconic aciduria, type vii, with cataracts, neurologic involvement and neutropenia, Microcytic anemia |
| TMPRSS6 | 2 / 5 | Iron-refractory iron deficiency anemia, Microcytic anemia |
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 ⇵ |
|---|---|---|---|---|---|
| Defective SLC11A2 causes hypochromic microcytic anemia, with iron overload 1 (AHMIO1) | Reactome | 1 / 1 | 2,002× | 5.00e-4 | 6.67e-3 ✓ sig. |
| Metal ion SLC transporters | Reactome | 1 / 9 | 222× | 4.49e-3 | 3.39e-2 ✓ sig. |
| Synthesis of PE | Reactome | 1 / 12 | 167× | 5.98e-3 | 4.10e-2 ✓ sig. |
| Triglyceride biosynthesis | Reactome | 1 / 13 | 154× | 6.48e-3 | 4.32e-2 ✓ sig. |
| Depolymerisation of the Nuclear Lamina | Reactome | 1 / 15 | 133× | 7.47e-3 | 4.73e-2 ✓ sig. |
| Cytosolic tRNA aminoacylation | Reactome | 1 / 24 | 83.4× | 1.19e-2 | 6.32e-2 |
| Synthesis of PC | Reactome | 1 / 28 | 71.5× | 1.39e-2 | 6.94e-2 |
| Iron uptake and transport | Reactome | 1 / 28 | 71.5× | 1.39e-2 | 6.94e-2 |
| Ferroptosis | KEGG | 1 / 42 | 47.7× | 2.08e-2 | 8.77e-2 |
| Collagen degradation | Reactome | 1 / 52 | 38.5× | 2.57e-2 | 9.90e-2 |
| Mineral absorption | KEGG | 1 / 61 | 32.8× | 3.01e-2 | 1.08e-1 |
| Longevity regulating pathway - multiple species | KEGG | 1 / 62 | 32.3× | 3.06e-2 | 1.10e-1 |
| Glycerolipid metabolism | KEGG | 1 / 64 | 31.3× | 3.16e-2 | 1.11e-1 |
| Aminoacyl-tRNA biosynthesis | KEGG | 1 / 66 | 30.3× | 3.25e-2 | 1.13e-1 |
| Degradation of the extracellular matrix | Reactome | 1 / 70 | 28.6× | 3.45e-2 | 1.17e-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 ⇵ |
|---|---|---|---|---|---|
| multicellular organismal-level iron ion homeostasis | GO:0060586 | 2 / 28 | 222× | 3.24e-5 | 1.33e-3 ✓ sig. |
| intracellular iron ion homeostasis | GO:0006879 | 2 / 71 | 87.7× | 2.11e-4 | 5.29e-3 ✓ sig. |
| vanadium ion transport | GO:0015676 | 1 / 1 | 3,115× | 3.21e-4 | 7.04e-3 ✓ sig. |
| lead ion transport | GO:0015692 | 1 / 1 | 3,115× | 3.21e-4 | 7.04e-3 ✓ sig. |
| nickel cation transmembrane transport | GO:0035444 | 1 / 1 | 3,115× | 3.21e-4 | 7.04e-3 ✓ sig. |
| NK T cell lineage commitment | GO:0002364 | 1 / 1 | 3,115× | 3.21e-4 | 7.04e-3 ✓ sig. |
| glutaminyl-tRNA aminoacylation | GO:0006425 | 1 / 2 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| leucyl-tRNA aminoacylation | GO:0006429 | 1 / 2 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| CD8-positive, alpha-beta T cell lineage commitment | GO:0043375 | 1 / 2 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| CD4-positive, CD25-positive, alpha-beta regulatory T cell lineage commitment | GO:0002362 | 1 / 2 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| nickel cation transport | GO:0015675 | 1 / 2 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| CD4-positive, alpha-beta T cell lineage commitment | GO:0043373 | 1 / 2 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| regulation of positive thymic T cell selection | GO:1902232 | 1 / 2 | 1,557× | 6.42e-4 | 1.11e-2 ✓ sig. |
| detection of oxygen | GO:0003032 | 1 / 3 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
| iron import into cell | GO:0033212 | 1 / 3 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Chronic recurrent multifocal osteomyelitis with congenital dyserythropoietic anemia | Majeed syndrome | 0.500 | 1 | 6.46e-5 | 1.98e-4 ✓ sig. |
| 3-methylglutaconic aciduria, type vii, with cataracts, neurologic involvement and neutropenia | Microcytic anemia | 0.167 | 1 | 3.23e-4 | 6.41e-4 ✓ sig. |
| Chronic recurrent multifocal osteomyelitis with congenital dyserythropoietic anemia | Microcytic anemia | 0.167 | 1 | 3.23e-4 | 6.41e-4 ✓ sig. |
| Majeed syndrome | Microcytic anemia | 0.167 | 1 | 3.23e-4 | 6.41e-4 ✓ sig. |
| Iron-refractory iron deficiency anemia | Microcytic anemia | 0.143 | 1 | 6.46e-4 | 1.09e-3 ✓ sig. |