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 163

9 diseases · 12 shared-gene connections
9 Diseases
14 Unique genes
0.170 Avg. similarity score
Bronchiolitis Most-connected disease (4 links)
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Disease Pinned (dragged)
Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details · click a node to select it and show its pairs below (double-click or Ctrl/⌘-click opens the disease page) · drag a node to pin it in place · scroll/pinch to zoom.

Member diseases (most connected first ‐ the cluster's core)

Disease ⇵ Connections in cluster ⇵ Significant partners ⇵ Curated genes ⇵
Bronchiolitis 4 4 4
Central nervous system disease 4 4 4
Diabetes microvascular complications 4 4 6
Esophageal stenosis 3 3 1
Extrinsic allergic alveolitis 3 3 4
Diffuse panbronchiolitis 2 2 2
Paraneoplastic syndrome 2 2 1
Choroidal neovascularization 1 1 1
Interstitial systitis 1 1 1

Top shared genes (genes linked to 2+ member diseases)

Gene ⇵ Member diseases ⇵ Linked diseases
SOD2 4 / 9 Central nervous system disease, Diabetes microvascular complications, Esophageal stenosis, Extrinsic allergic alveolitis
EPO 3 / 9 Central nervous system disease, Diabetes microvascular complications, Paraneoplastic syndrome
MUC5B 3 / 9 Bronchiolitis, Diffuse panbronchiolitis, Extrinsic allergic alveolitis
ADRB2 2 / 9 Bronchiolitis, Interstitial systitis
IL17A 2 / 9 Bronchiolitis, Central nervous system disease
VEGFA 2 / 9 Choroidal neovascularization, Diabetes microvascular complications
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 ⇵
Regulation of gene expression by Hypoxia-inducible Factor
EPO, VEGFA
 Reactome 2 / 11 156× 6.90e-5 1.65e-3 ✓ sig.
IL-17 signaling pathway
IL17A, MUC5B, TNF
 KEGG 3 / 94 27.4× 1.59e-4 3.26e-3 ✓ sig.
Rheumatoid arthritis
IL17A, VEGFA, TNF
 KEGG 3 / 95 27.1× 1.64e-4 3.34e-3 ✓ sig.
Interleukin-4 and Interleukin-13 signaling
IL17A, VEGFA, TNF
 Reactome 3 / 108 23.8× 2.40e-4 4.50e-3 ✓ sig.
Cytokine-cytokine receptor interaction
IL17A, EPO, TNF, IL1RN
 KEGG 4 / 298 11.5× 3.05e-4 5.44e-3 ✓ sig.
Interleukin-10 signaling
TNF, IL1RN
 Reactome 2 / 47 36.5× 1.32e-3 1.67e-2 ✓ sig.
Transcriptional activation of mitochondrial biogenesis
IDH2, SOD2
 Reactome 2 / 51 33.6× 1.56e-3 1.90e-2 ✓ sig.
Human cytomegalovirus infection
VEGFA, TAP1, TNF
 KEGG 3 / 226 11.4× 2.05e-3 2.33e-2 ✓ sig.
Signaling by VEGF
VEGFA
 Reactome 1 / 2 429× 2.33e-3 2.55e-2 ✓ sig.
Inflammatory bowel disease
IL17A, TNF
 KEGG 2 / 66 26.0× 2.59e-3 2.77e-2 ✓ sig.
Renin secretion
ADRB2, ACE
 KEGG 2 / 69 24.9× 2.83e-3 2.95e-2 ✓ sig.
Antigen processing and presentation
TAP1, TNF
 KEGG 2 / 81 21.2× 3.88e-3 3.69e-2 ✓ sig.
Peroxisome
IDH2, SOD2
 KEGG 2 / 83 20.7× 4.07e-3 3.81e-2 ✓ sig.
Salivary secretion
ADRB2, MUC5B
 KEGG 2 / 93 18.4× 5.08e-3 4.42e-2 ✓ sig.
Hypertrophic cardiomyopathy
TNF, ACE
 KEGG 2 / 99 17.3× 5.74e-3 4.80e-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 ⇵
vasodilation
SOD2, VEGFA, TNF, ACE
 GO:0042311 4 / 50 107× 4.45e-8 6.14e-6 ✓ sig.
response to isolation stress
SOD2, TNF
 GO:0035900 2 / 4 667× 3.12e-6 2.06e-4 ✓ sig.
response to hypoxia
EPO, SOD2, VEGFA, TNF
 GO:0001666 4 / 176 30.3× 7.07e-6 3.96e-4 ✓ sig.
negative regulation of fat cell differentiation
SOD2, VEGFA, TNF
 GO:0045599 3 / 57 70.3× 9.56e-6 5.04e-4 ✓ sig.
response to salt stress
EPO, TNF
 GO:0009651 2 / 9 297× 1.87e-5 8.50e-4 ✓ sig.
positive regulation of DNA biosynthetic process
VEGFA, TNF
 GO:2000573 2 / 12 222× 3.43e-5 1.35e-3 ✓ sig.
response to hyperoxia
EPO, SOD2
 GO:0055093 2 / 14 191× 4.72e-5 1.72e-3 ✓ sig.
response to electrical stimulus
EPO, SOD2
 GO:0051602 2 / 24 111× 1.43e-4 3.94e-3 ✓ sig.
negative regulation of miRNA transcription
VEGFA, TNF
 GO:1902894 2 / 27 98.9× 1.81e-4 4.71e-3 ✓ sig.
positive regulation of osteoclast differentiation
IL17A, TNF
 GO:0045672 2 / 28 95.3× 1.95e-4 4.96e-3 ✓ sig.
response to lipopolysaccharide
EPO, SOD2, TNF
 GO:0032496 3 / 161 24.9× 2.13e-4 5.27e-3 ✓ sig.
blood vessel diameter maintenance
ADRB2, ACE
 GO:0097746 2 / 37 72.2× 3.42e-4 7.34e-3 ✓ sig.
acute-phase response
EPO, IL1RN
 GO:0006953 2 / 37 72.2× 3.42e-4 7.34e-3 ✓ sig.
response to axon injury
EPO, SOD2
 GO:0048678 2 / 37 72.2× 3.42e-4 7.34e-3 ✓ sig.
positive regulation of cytokine production involved in inflammatory response
IL17A, TNF
 GO:1900017 2 / 37 72.2× 3.42e-4 7.34e-3 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Central nervous system disease Diabetes microvascular complications 0.222 2 7.59e-7 4.79e-6 ✓ sig.
Bronchiolitis Interstitial systitis 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Central nervous system disease Paraneoplastic syndrome 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Central nervous system disease Esophageal stenosis 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Esophageal stenosis Extrinsic allergic alveolitis 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Choroidal neovascularization Diabetes microvascular complications 0.143 1 3.90e-4 8.52e-4 ✓ sig.
Diabetes microvascular complications Esophageal stenosis 0.143 1 3.90e-4 8.52e-4 ✓ sig.
Diabetes microvascular complications Paraneoplastic syndrome 0.143 1 3.90e-4 8.52e-4 ✓ sig.
Bronchiolitis Diffuse panbronchiolitis 0.167 1 5.19e-4 1.04e-3 ✓ sig.
Diffuse panbronchiolitis Extrinsic allergic alveolitis 0.167 1 5.19e-4 1.04e-3 ✓ sig.
Bronchiolitis Central nervous system disease 0.125 1 1.04e-3 1.72e-3 ✓ sig.
Bronchiolitis Extrinsic allergic alveolitis 0.125 1 1.04e-3 1.72e-3 ✓ sig.