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 401

5 diseases · 9 shared-gene connections
5 Diseases
18 Unique genes
0.244 Avg. similarity score
Blau syndrome 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 ⇵
Blau syndrome 4 4 1
Granulomatous inflammatory arthritis-dermatitis-uveitis, familial 4 4 1
Yao syndrome 4 4 1
Bronchiolitis obliterans 3 3 5
Intestinal disease 3 3 14

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

Gene ⇵ Member diseases ⇵ Linked diseases
NOD2 5 / 5 Blau syndrome, Bronchiolitis obliterans, Granulomatous inflammatory arthritis-dermatitis-uveitis, familial, Intestinal disease and 1 more
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 ⇵
Tuberculosis
NOD2, IFNG, TLR9, MAPK14, NOS2
 KEGG 5 / 181 18.4× 5.38e-6 2.01e-4 ✓ sig.
Chagas disease
IFNG, TLR9, MAPK14, NOS2
 KEGG 4 / 103 25.9× 1.42e-5 4.49e-4 ✓ sig.
Toxoplasmosis
IFNG, MAPK14, NOS2, PPIF
 KEGG 4 / 112 23.8× 1.98e-5 5.94e-4 ✓ sig.
Fluid shear stress and atherosclerosis
EDN1, IFNG, MAPK14, BMPR1A
 KEGG 4 / 141 18.9× 4.90e-5 1.26e-3 ✓ sig.
Leishmaniasis
IFNG, MAPK14, NOS2
 KEGG 3 / 78 25.7× 2.00e-4 3.91e-3 ✓ sig.
PD-L1 expression and PD-1 checkpoint pathway in cancer
IFNG, TLR9, MAPK14
 KEGG 3 / 90 22.2× 3.06e-4 5.45e-3 ✓ sig.
HIF-1 signaling pathway
EDN1, IFNG, NOS2
 KEGG 3 / 110 18.2× 5.52e-4 8.60e-3 ✓ sig.
activated TAK1 mediates p38 MAPK activation
NOD2, MAPK14
 Reactome 2 / 24 55.6× 5.74e-4 8.88e-3 ✓ sig.
TNF signaling pathway
NOD2, EDN1, MAPK14
 KEGG 3 / 119 16.8× 6.94e-4 1.03e-2 ✓ sig.
Relaxin signaling pathway
EDN1, MAPK14, NOS2
 KEGG 3 / 130 15.4× 8.98e-4 1.25e-2 ✓ sig.
NOD1/2 Signaling Pathway
NOD2, MAPK14
 Reactome 2 / 36 37.1× 1.30e-3 1.65e-2 ✓ sig.
African trypanosomiasis
IFNG, TLR9
 KEGG 2 / 37 36.1× 1.37e-3 1.72e-2 ✓ sig.
Malaria
IFNG, TLR9
 KEGG 2 / 50 26.7× 2.49e-3 2.69e-2 ✓ sig.
SDK interactions
SDK2
 Reactome 1 / 2 334× 3.00e-3 3.07e-2 ✓ sig.
Peroxisomal protein import
ACOT8, NOS2
 Reactome 2 / 63 21.2× 3.93e-3 3.73e-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-8 production
NOD2, TLR9, DDIT3, NOS2
 GO:0032757 4 / 65 63.9× 3.93e-7 3.82e-5 ✓ sig.
positive regulation of interleukin-6 production
NOD2, IFNG, TLR9, NOS2
 GO:0032755 4 / 103 40.3× 2.51e-6 1.73e-4 ✓ sig.
positive regulation of interleukin-12 production
IFNG, TLR9, MAPK14
 GO:0032735 3 / 43 72.4× 9.04e-6 4.83e-4 ✓ sig.
cellular response to lipopolysaccharide
NOD2, TLR9, MAPK14, NOS2
 GO:0071222 4 / 187 22.2× 2.66e-5 1.12e-3 ✓ sig.
positive regulation of B cell activation
NOD2, TLR9
 GO:0050871 2 / 10 208× 3.93e-5 1.50e-3 ✓ sig.
defense response to bacterium
NOD2, MBL2, TLR9, NOS2
 GO:0042742 4 / 214 19.4× 4.51e-5 1.67e-3 ✓ sig.
pharyngeal arch artery morphogenesis
EDN1, BMPR1A
 GO:0061626 2 / 11 189× 4.80e-5 1.74e-3 ✓ sig.
regulation of cytokine production involved in inflammatory response
MAPK14, NOS2
 GO:1900015 2 / 11 189× 4.80e-5 1.74e-3 ✓ sig.
response to muramyl dipeptide
NOD2, MAPK14
 GO:0032495 2 / 13 160× 6.79e-5 2.26e-3 ✓ sig.
positive regulation of transcription by RNA polymerase II
NOD2, EDN1, IFNG, TLR9, MAPK14, BMPR1A, DDIT3
 GO:0045944 7 / 1,208 6.0× 7.84e-5 2.52e-3 ✓ sig.
maintenance of gastrointestinal epithelium
NOD2, TLR9
 GO:0030277 2 / 16 130× 1.04e-4 3.12e-3 ✓ sig.
positive regulation of JNK cascade
NOD2, EDN1, TLR9
 GO:0046330 3 / 102 30.5× 1.21e-4 3.50e-3 ✓ sig.
positive regulation of tumor necrosis factor production
NOD2, IFNG, TLR9
 GO:0032760 3 / 113 27.6× 1.64e-4 4.39e-3 ✓ sig.
response to muscle stretch
EDN1, MAPK14
 GO:0035994 2 / 20 104× 1.65e-4 4.39e-3 ✓ sig.
Fc-gamma receptor signaling pathway involved in phagocytosis
IFNG, NOS2
 GO:0038096 2 / 23 90.3× 2.19e-4 5.37e-3 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Blau syndrome Granulomatous inflammatory arthritis-dermatitis-uveitis, familial 0.500 1 6.49e-5 2.34e-4 ✓ sig.
Blau syndrome Yao syndrome 0.500 1 6.49e-5 2.34e-4 ✓ sig.
Granulomatous inflammatory arthritis-dermatitis-uveitis, familial Yao syndrome 0.500 1 6.49e-5 2.34e-4 ✓ sig.
Blau syndrome Bronchiolitis obliterans 0.167 1 3.25e-4 7.58e-4 ✓ sig.
Bronchiolitis obliterans Granulomatous inflammatory arthritis-dermatitis-uveitis, familial 0.167 1 3.25e-4 7.58e-4 ✓ sig.
Bronchiolitis obliterans Yao syndrome 0.167 1 3.25e-4 7.58e-4 ✓ sig.
Blau syndrome Intestinal disease 0.067 1 9.09e-4 1.56e-3 ✓ sig.
Granulomatous inflammatory arthritis-dermatitis-uveitis, familial Intestinal disease 0.067 1 9.09e-4 1.56e-3 ✓ sig.
Intestinal disease Yao syndrome 0.067 1 9.09e-4 1.56e-3 ✓ sig.