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.

← Back to all clusters

Cluster 254

7 diseases · 13 shared-gene connections
7 Diseases
23 Unique genes
0.190 Avg. similarity score
Autoimmune pulmonary alveolar proteinosis Most-connected disease (5 links)
Log in to save this analysis

Save This Analysis

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 ⇵
Autoimmune pulmonary alveolar proteinosis 5 5 1
Heerfordt syndrome 5 5 1
Thromboangiitis obliterans 5 5 2
Anti-glomerular basement membrane disease 4 4 4
Congenital pulmonary artery atresia 3 3 11
Follicular lymphoma 3 3 9
Primary immunodeficiency with defective natural killer cell cytotoxicity 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
HLA-DRB1 6 / 7 Anti-glomerular basement membrane disease, Autoimmune pulmonary alveolar proteinosis, Congenital pulmonary artery atresia, Follicular lymphoma and 2 more
FCGR3A 2 / 7 Anti-glomerular basement membrane disease, Primary immunodeficiency with defective natural killer cell cytotoxicity
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 ⇵
Autoimmune thyroid disease
CTLA4, HLA-DPB1, HLA-DRB1, HLA-A
 KEGG 4 / 54 38.7× 3.03e-6 1.25e-4 ✓ sig.
Allograft rejection
HLA-DPB1, HLA-DRB1, HLA-A
 KEGG 3 / 39 40.2× 5.36e-5 1.35e-3 ✓ sig.
Type I diabetes mellitus
HLA-DPB1, HLA-DRB1, HLA-A
 KEGG 3 / 44 35.6× 7.72e-5 1.82e-3 ✓ sig.
Graft-versus-host disease
HLA-DPB1, HLA-DRB1, HLA-A
 KEGG 3 / 45 34.8× 8.26e-5 1.92e-3 ✓ sig.
Phagosome
FCGR3A, HLA-DPB1, HLA-DRB1, HLA-A
 KEGG 4 / 155 13.5× 1.95e-4 3.84e-3 ✓ sig.
Cell adhesion molecules
CTLA4, HLA-DPB1, HLA-DRB1, HLA-A
 KEGG 4 / 160 13.1× 2.20e-4 4.23e-3 ✓ sig.
Viral myocarditis
HLA-DPB1, HLA-DRB1, HLA-A
 KEGG 3 / 70 22.4× 3.09e-4 5.49e-3 ✓ sig.
Tuberculosis
FCGR3A, HLA-DPB1, HLA-DRB1, BCL2
 KEGG 4 / 181 11.5× 3.53e-4 6.09e-3 ✓ sig.
Herpes simplex virus 1 infection
HLA-DPB1, HLA-DRB1, BCL2, HLA-A
 KEGG 4 / 182 11.5× 3.61e-4 6.19e-3 ✓ sig.
Leishmaniasis
FCGR3A, HLA-DPB1, HLA-DRB1
 KEGG 3 / 78 20.1× 4.25e-4 7.02e-3 ✓ sig.
Antigen processing and presentation
HLA-DPB1, HLA-DRB1, HLA-A
 KEGG 3 / 81 19.3× 4.75e-4 7.66e-3 ✓ sig.
Epstein-Barr virus infection
HLA-DPB1, HLA-DRB1, BCL2, HLA-A
 KEGG 4 / 204 10.2× 5.56e-4 8.65e-3 ✓ sig.
Interferon gamma signaling
HLA-DPB1, HLA-DRB1, HLA-A
 Reactome 3 / 87 18.0× 5.86e-4 9.01e-3 ✓ sig.
Translocation of ZAP-70 to Immunological synapse
HLA-DPB1, HLA-DRB1
 Reactome 2 / 19 55.0× 5.88e-4 9.04e-3 ✓ sig.
Rheumatoid arthritis
CTLA4, HLA-DPB1, HLA-DRB1
 KEGG 3 / 95 16.5× 7.57e-4 1.10e-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 ⇵
T cell receptor signaling pathway
CTLA4, HLA-DPB1, HLA-DRB1, HLA-A
 GO:0050852 4 / 121 26.9× 1.35e-5 6.58e-4 ✓ sig.
antigen processing and presentation
HLA-DPB1, HLA-DRB1, HLA-A
 GO:0019882 3 / 48 50.8× 2.72e-5 1.13e-3 ✓ sig.
negative regulation of B cell apoptotic process
BCL2, BCL6
 GO:0002903 2 / 11 148× 7.92e-5 2.54e-3 ✓ sig.
detection of bacterium
HLA-DRB1, HLA-A
 GO:0016045 2 / 12 135× 9.49e-5 2.91e-3 ✓ sig.
antigen processing and presentation of peptide or polysaccharide antigen via MHC class II
HLA-DPB1, HLA-DRB1
 GO:0002504 2 / 15 108× 1.51e-4 4.11e-3 ✓ sig.
peptide antigen assembly with MHC class II protein complex
HLA-DPB1, HLA-DRB1
 GO:0002503 2 / 16 102× 1.72e-4 4.54e-3 ✓ sig.
regulation of T cell proliferation
CTLA4, BCL6
 GO:0042129 2 / 17 95.6× 1.95e-4 4.96e-3 ✓ sig.
T cell mediated cytotoxicity
FCGR3A, HLA-A
 GO:0001913 2 / 18 90.3× 2.19e-4 5.37e-3 ✓ sig.
immune response
CTLA4, FCGR3A, HLA-DPB1, HLA-DRB1, HLA-A
 GO:0006955 5 / 543 7.5× 4.43e-4 8.81e-3 ✓ sig.
vesicle docking involved in exocytosis
EXOC6, PLEK
 GO:0006904 2 / 29 56.0× 5.77e-4 1.06e-2 ✓ sig.
positive regulation of apoptotic process
CTLA4, BCLAF1, BCL2, BCL6
 GO:0043065 4 / 326 10.0× 6.19e-4 1.11e-2 ✓ sig.
antigen processing and presentation of exogenous peptide antigen via MHC class II
HLA-DPB1, HLA-DRB1
 GO:0019886 2 / 31 52.4× 6.59e-4 1.15e-2 ✓ sig.
immune system process
CTLA4, FCGR3A, HLA-DPB1, HLA-DRB1, BCL6, HLA-A
 GO:0002376 6 / 943 5.2× 7.82e-4 1.29e-2 ✓ sig.
positive regulation of T cell mediated cytotoxicity
HLA-DRB1, HLA-A
 GO:0001916 2 / 34 47.8× 7.94e-4 1.30e-2 ✓ sig.
positive regulation of multicellular organism growth
CHD7, BCL2
 GO:0040018 2 / 34 47.8× 7.94e-4 1.30e-2 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Autoimmune pulmonary alveolar proteinosis Heerfordt syndrome 0.500 1 6.49e-5 2.34e-4 ✓ sig.
Autoimmune pulmonary alveolar proteinosis Thromboangiitis obliterans 0.333 1 1.30e-4 3.90e-4 ✓ sig.
Heerfordt syndrome Thromboangiitis obliterans 0.333 1 1.30e-4 3.90e-4 ✓ sig.
Anti-glomerular basement membrane disease Autoimmune pulmonary alveolar proteinosis 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Anti-glomerular basement membrane disease Heerfordt syndrome 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Anti-glomerular basement membrane disease Primary immunodeficiency with defective natural killer cell cytotoxicity 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Anti-glomerular basement membrane disease Thromboangiitis obliterans 0.167 1 5.19e-4 1.04e-3 ✓ sig.
Autoimmune pulmonary alveolar proteinosis Follicular lymphoma 0.100 1 5.84e-4 1.14e-3 ✓ sig.
Follicular lymphoma Heerfordt syndrome 0.100 1 5.84e-4 1.14e-3 ✓ sig.
Autoimmune pulmonary alveolar proteinosis Congenital pulmonary artery atresia 0.083 1 7.14e-4 1.31e-3 ✓ sig.
Congenital pulmonary artery atresia Heerfordt syndrome 0.083 1 7.14e-4 1.31e-3 ✓ sig.
Follicular lymphoma Thromboangiitis obliterans 0.091 1 1.17e-3 1.88e-3 ✓ sig.
Congenital pulmonary artery atresia Thromboangiitis obliterans 0.077 1 1.43e-3 2.21e-3 ✓ sig.