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 552
5
Diseases
9
Unique genes
0.174
Avg. similarity score
Bronchiolitis
Most-connected disease (4 links)
Disease
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Bronchiolitis
Antithrombin deficiency
Diffuse panbronchiolitis
Interstitial lung disease 2
Interstitial systitis
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Bronchiolitis | 4 | 4 | 4 |
| Antithrombin deficiency | 3 | 3 | 3 |
| Diffuse panbronchiolitis | 3 | 3 | 2 |
| Interstitial lung disease 2 | 3 | 3 | 3 |
| Interstitial systitis | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| MUC5B | 4 / 5 | Antithrombin deficiency, Bronchiolitis, Diffuse panbronchiolitis, Interstitial lung disease 2 |
| ADRB2 | 2 / 5 | Bronchiolitis, Interstitial systitis |
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 ⇵ |
|---|---|---|---|---|---|
| IL-17 signaling pathway | KEGG | 3 / 94 | 42.6× | 3.77e-5 | 8.71e-4 ✓ sig. |
| Defective SFTPA2 causes idiopathic pulmonary fibrosis (IPF) | Reactome | 1 / 1 | 1,334× | 7.49e-4 | 9.09e-3 ✓ sig. |
| Inflammatory bowel disease | KEGG | 2 / 66 | 40.4× | 1.04e-3 | 1.17e-2 ✓ sig. |
| Pertussis | KEGG | 2 / 78 | 34.2× | 1.46e-3 | 1.50e-2 ✓ sig. |
| Salivary secretion | KEGG | 2 / 93 | 28.7× | 2.06e-3 | 1.94e-2 ✓ sig. |
| Rheumatoid arthritis | KEGG | 2 / 95 | 28.1× | 2.15e-3 | 2.01e-2 ✓ sig. |
| Interleukin-4 and Interleukin-13 signaling | Reactome | 2 / 108 | 24.7× | 2.77e-3 | 2.41e-2 ✓ sig. |
| Th17 cell differentiation | KEGG | 2 / 109 | 24.5× | 2.82e-3 | 2.44e-2 ✓ sig. |
| CLEC7A/inflammasome pathway | Reactome | 1 / 6 | 222× | 4.49e-3 | 3.39e-2 ✓ sig. |
| Toll Like Receptor TLR1:TLR2 Cascade | Reactome | 1 / 6 | 222× | 4.49e-3 | 3.39e-2 ✓ sig. |
| Alcoholic liver disease | KEGG | 2 / 144 | 18.5× | 4.86e-3 | 3.59e-2 ✓ sig. |
| Defective CSF2RB causes pulmonary surfactant metabolism dysfunction 5 (SMDP5) | Reactome | 1 / 7 | 191× | 5.24e-3 | 3.76e-2 ✓ sig. |
| Defective CSF2RA causes pulmonary surfactant metabolism dysfunction 4 (SMDP4) | Reactome | 1 / 7 | 191× | 5.24e-3 | 3.76e-2 ✓ sig. |
| Interleukin-17 signaling | Reactome | 1 / 8 | 167× | 5.98e-3 | 4.10e-2 ✓ sig. |
| Interleukin-1 processing | Reactome | 1 / 8 | 167× | 5.98e-3 | 4.10e-2 ✓ 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 ⇵ |
|---|---|---|---|---|---|
| positive regulation of interleukin-16 production | GO:0032739 | 1 / 1 | 2,076× | 4.82e-4 | 9.24e-3 ✓ sig. |
| regulation of systemic arterial blood pressure by norepinephrine-epinephrine | GO:0001993 | 1 / 1 | 2,076× | 4.82e-4 | 9.24e-3 ✓ sig. |
| positive regulation of mini excitatory postsynaptic potential | GO:0061885 | 1 / 1 | 2,076× | 4.82e-4 | 9.24e-3 ✓ sig. |
| negative regulation of gap junction assembly | GO:1903597 | 1 / 2 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
| positive regulation of antimicrobial peptide production | GO:0002225 | 1 / 2 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
| granulocyte migration | GO:0097530 | 1 / 2 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
| positive regulation of tumor necrosis factor superfamily cytokine production | GO:1903557 | 1 / 2 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
| positive regulation of complement activation | GO:0045917 | 1 / 2 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
| regulation of nitric-oxide synthase activity | GO:0050999 | 1 / 2 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
| positive regulation of RNA biosynthetic process | GO:1902680 | 1 / 2 | 1,038× | 9.63e-4 | 1.42e-2 ✓ sig. |
| positive regulation of interleukin-6 production | GO:0032755 | 2 / 103 | 40.3× | 1.06e-3 | 1.51e-2 ✓ sig. |
| norepinephrine-epinephrine-mediated vasodilation involved in regulation of systemic arterial blood pressure | GO:0002025 | 1 / 3 | 692× | 1.44e-3 | 1.79e-2 ✓ sig. |
| monocyte aggregation | GO:0070487 | 1 / 3 | 692× | 1.44e-3 | 1.79e-2 ✓ sig. |
| fever generation | GO:0001660 | 1 / 3 | 692× | 1.44e-3 | 1.79e-2 ✓ sig. |
| positive regulation of T cell mediated immunity | GO:0002711 | 1 / 3 | 692× | 1.44e-3 | 1.79e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Bronchiolitis | Interstitial systitis | 0.200 | 1 | 2.58e-4 | 5.38e-4 ✓ sig. |
| Antithrombin deficiency | Diffuse panbronchiolitis | 0.200 | 1 | 3.87e-4 | 7.33e-4 ✓ sig. |
| Diffuse panbronchiolitis | Interstitial lung disease 2 | 0.200 | 1 | 3.87e-4 | 7.33e-4 ✓ sig. |
| Bronchiolitis | Diffuse panbronchiolitis | 0.167 | 1 | 5.16e-4 | 9.13e-4 ✓ sig. |
| Antithrombin deficiency | Interstitial lung disease 2 | 0.167 | 1 | 5.81e-4 | 1.00e-3 ✓ sig. |
| Antithrombin deficiency | Bronchiolitis | 0.143 | 1 | 7.75e-4 | 1.25e-3 ✓ sig. |
| Bronchiolitis | Interstitial lung disease 2 | 0.143 | 1 | 7.75e-4 | 1.25e-3 ✓ sig. |