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 137

9 diseases · 16 shared-gene connections
9 Diseases
162 Unique genes
0.091 Avg. similarity score
Upper respiratory tract disorder Most-connected disease (7 links)
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Disease Searched: ciliary dyskinesia, primary, 41 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 ⇵
Upper respiratory tract disorder 7 7 20
Nasal disorder 6 6 23
Pharyngeal disorder 5 5 31
Nasal polyp 3 3 39
Seasonal allergic rhinitis 3 3 100
Intellectual developmental disorder dysmorphic macrocephaly 2 2 1
ciliary dyskinesia, primary, 41 2 2 1
immunodeficiency 104 2 2 2
immunodeficiency, common variable, 12 2 2 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
IL7R 6 / 9 immunodeficiency 104, Nasal disorder, Nasal polyp, Pharyngeal disorder and 2 more
IL18R1 4 / 9 Nasal disorder, Nasal polyp, Seasonal allergic rhinitis, Upper respiratory tract disorder
IL1RL1 4 / 9 Nasal disorder, Nasal polyp, Seasonal allergic rhinitis, Upper respiratory tract disorder
NFKB1 4 / 9 immunodeficiency, common variable, 12, Pharyngeal disorder, Seasonal allergic rhinitis, Upper respiratory tract disorder
RANBP6 4 / 9 Nasal disorder, Nasal polyp, Seasonal allergic rhinitis, Upper respiratory tract disorder
CLEC16A 3 / 9 Nasal disorder, Nasal polyp, Seasonal allergic rhinitis
FBXO33 3 / 9 Nasal disorder, Pharyngeal disorder, Upper respiratory tract disorder
GAS2L2 3 / 9 ciliary dyskinesia, primary, 41, Nasal disorder, Pharyngeal disorder
IL33 3 / 9 Nasal polyp, Seasonal allergic rhinitis, Upper respiratory tract disorder
NEK6 3 / 9 Nasal disorder, Pharyngeal disorder, Upper respiratory tract disorder
SMAD3 3 / 9 Nasal disorder, Seasonal allergic rhinitis, Upper respiratory tract disorder
SPEF2 3 / 9 Nasal disorder, Nasal polyp, Seasonal allergic rhinitis
TSLP 3 / 9 Nasal polyp, Seasonal allergic rhinitis, Upper respiratory tract disorder
WDR36 3 / 9 Nasal disorder, Nasal polyp, Seasonal allergic rhinitis
ZBTB7A 3 / 9 Intellectual developmental disorder dysmorphic macrocephaly, Pharyngeal disorder, Upper respiratory tract disorder
ABO 2 / 9 Pharyngeal disorder, Seasonal allergic rhinitis
ADAM23 2 / 9 Pharyngeal disorder, Upper respiratory tract disorder
ALOX15 2 / 9 Nasal polyp, Seasonal allergic rhinitis
ARNT 2 / 9 Nasal polyp, Pharyngeal disorder
BACH2 2 / 9 Nasal polyp, Seasonal allergic rhinitis
CYP2S1 2 / 9 Nasal disorder, Nasal polyp
EMSY 2 / 9 Nasal disorder, Seasonal allergic rhinitis
ERBB3 2 / 9 Nasal polyp, Seasonal allergic rhinitis
HLA-B 2 / 9 Nasal polyp, Seasonal allergic rhinitis
HLA-DQA1 2 / 9 Nasal polyp, Seasonal allergic rhinitis
IKZF1 2 / 9 Pharyngeal disorder, Upper respiratory tract disorder
IKZF3 2 / 9 Nasal disorder, Seasonal allergic rhinitis
KLHL1 2 / 9 Pharyngeal disorder, Upper respiratory tract disorder
KRT19 2 / 9 Pharyngeal disorder, Upper respiratory tract disorder
LTBR 2 / 9 Pharyngeal disorder, Upper respiratory tract disorder
RPS26 2 / 9 Nasal polyp, Seasonal allergic rhinitis
SLC12A8 2 / 9 Pharyngeal disorder, Upper respiratory tract disorder
TET2 2 / 9 Pharyngeal disorder, Upper respiratory tract disorder
TNFRSF13B 2 / 9 Pharyngeal disorder, Upper respiratory tract disorder
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 ⇵
Inflammatory bowel disease
IL23R, NFKB1, GATA3, HLA-DQA1, HLA-DRB1, IL18R1, IL18RAP, IL4R, SMAD3, HLA-DQB1, HLA-DRA, IL2
 KEGG 14 / 66 15.7× 1.58e-13 3.85e-11 ✓ sig.
Th17 cell differentiation
IL23R, NFKB1, GATA3, HLA-DQA1, HLA-DRB1, IRF4, IL4R, SMAD3, CD247, HLA-DQB1, HLA-DRA, IL2
 KEGG 15 / 109 10.2× 1.58e-11 2.72e-9 ✓ sig.
Phosphorylation of CD3 and TCR zeta chains
HLA-DQA1, HLA-DRB1, CD247, HLA-DQB1, HLA-DRA, PTPRC
 Reactome 6 / 22 20.2× 3.43e-7 2.06e-5 ✓ sig.
Th1 and Th2 cell differentiation
NFKB1, GATA3, HLA-DQA1, HLA-DRB1, IL4R, CD247, HLA-DQB1, HLA-DRA, IL2, NFATC2
 KEGG 10 / 93 8.0× 4.66e-7 2.69e-5 ✓ sig.
Translocation of ZAP-70 to Immunological synapse
HLA-DQA1, HLA-DRB1, CD247, HLA-DQB1, HLA-DRA
 Reactome 5 / 19 19.5× 4.19e-6 1.76e-4 ✓ sig.
Intestinal immune network for IgA production
LTBR, TNFRSF13B, HLA-DQA1, HLA-DRB1, HLA-DQB1, HLA-DRA, IL2
 KEGG 7 / 50 10.4× 4.38e-6 1.82e-4 ✓ sig.
PD-1 signaling
HLA-DQA1, HLA-DRB1, CD247, HLA-DQB1, HLA-DRA
 Reactome 5 / 23 16.1× 1.16e-5 4.01e-4 ✓ sig.
Allograft rejection
HLA-B, HLA-DQA1, HLA-DRB1, HLA-DQB1, HLA-DRA, IL2
 KEGG 6 / 39 11.4× 1.24e-5 4.24e-4 ✓ sig.
Type I diabetes mellitus
HLA-B, HLA-DQA1, HLA-DRB1, HLA-DQB1, HLA-DRA, IL2
 KEGG 6 / 44 10.1× 2.54e-5 7.70e-4 ✓ sig.
Graft-versus-host disease
HLA-B, HLA-DQA1, HLA-DRB1, HLA-DQB1, HLA-DRA, IL2
 KEGG 6 / 45 9.9× 2.89e-5 8.55e-4 ✓ sig.
Viral myocarditis
ITGAL, HLA-B, HLA-DQA1, HLA-DRB1, ABL2, HLA-DQB1, HLA-DRA
 KEGG 7 / 70 7.4× 4.19e-5 1.16e-3 ✓ sig.
Generation of second messenger molecules
HLA-DQA1, HLA-DRB1, CD247, HLA-DQB1, HLA-DRA
 Reactome 5 / 31 12.0× 5.37e-5 1.41e-3 ✓ sig.
Asthma
HLA-DQA1, HLA-DRB1, FCER1G, HLA-DQB1, HLA-DRA
 KEGG 5 / 32 11.6× 6.30e-5 1.60e-3 ✓ sig.
Autoimmune thyroid disease
HLA-B, HLA-DQA1, HLA-DRB1, HLA-DQB1, HLA-DRA, IL2
 KEGG 6 / 54 8.2× 8.30e-5 2.00e-3 ✓ sig.
Interferon gamma signaling
HLA-B, HLA-DQA1, HLA-DRB1, IRF1, IRF4, HLA-DQB1, HLA-DRA
 Reactome 7 / 87 6.0× 1.69e-4 3.51e-3 ✓ 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 ⇵
regulation of T-helper cell differentiation
GATA3, HLA-DRB1, IRF4, HLA-DRA
 GO:0045622 4 / 5 92.3× 2.70e-8 4.05e-6 ✓ sig.
immune response
IL7R, LTBR, HLA-B, HLA-DQA1, HLA-DRB1, IL18R1, IL18RAP, IL1RL1, IL4R, SMAD3, CCR7, CD207
 GO:0006955 19 / 543 4.0× 2.58e-7 2.76e-5 ✓ sig.
positive regulation of interleukin-5 production
GATA3, IL1RL1, IL33, TSLP
 GO:0032754 4 / 12 38.5× 2.55e-6 1.81e-4 ✓ sig.
antigen processing and presentation
HLA-B, HLA-DQA1, HLA-DRB1, RAB5B, HLA-DQB1, HLA-DRA
 GO:0019882 6 / 48 14.4× 3.51e-6 2.33e-4 ✓ sig.
antigen processing and presentation of exogenous peptide antigen via MHC class II
HLA-DQA1, HLA-DRB1, FCER1G, HLA-DQB1, HLA-DRA
 GO:0019886 5 / 31 18.6× 6.52e-6 3.84e-4 ✓ sig.
antigen processing and presentation of peptide or polysaccharide antigen via MHC class II
HLA-DQA1, HLA-DRB1, HLA-DQB1, HLA-DRA
 GO:0002504 4 / 15 30.8× 6.90e-6 4.01e-4 ✓ sig.
positive regulation of interleukin-13 production
GATA3, IL33, IRF4, TSLP
 GO:0032736 4 / 15 30.8× 6.90e-6 4.01e-4 ✓ sig.
positive regulation of immunoglobulin production
IL33, IL4R, IL2, IL21, PTPRC
 GO:0002639 5 / 33 17.5× 8.98e-6 4.98e-4 ✓ sig.
peptide antigen assembly with MHC class II protein complex
HLA-DQA1, HLA-DRB1, HLA-DQB1, HLA-DRA
 GO:0002503 4 / 16 28.8× 9.13e-6 5.04e-4 ✓ sig.
negative regulation of DNA-templated transcription
IKZF1, NFKB1, ZBTB7A, ZNF417, FOXP1, GATA3, IRF1, FOXO1, CEBPA, FERD3L, GLI3, PRDM16
 GO:0045892 18 / 631 3.3× 9.56e-6 5.22e-4 ✓ sig.
positive regulation of T cell mediated cytotoxicity
IL23R, HLA-B, HLA-DRB1, HLA-DRA, PTPRC
 GO:0001916 5 / 34 17.0× 1.05e-5 5.59e-4 ✓ sig.
macrophage differentiation
GATA3, HLA-DRB1, IL1RL1, IL33, CEBPA
 GO:0030225 5 / 37 15.6× 1.60e-5 7.82e-4 ✓ sig.
positive regulation of immune response
HLA-DQA1, HLA-DRB1, FCER1G, HLA-DQB1, HLA-DRA
 GO:0050778 5 / 40 14.4× 2.37e-5 1.05e-3 ✓ sig.
positive regulation of macrophage activation
IL1RL1, IL33, IL4R, CEBPA
 GO:0043032 4 / 21 22.0× 2.90e-5 1.23e-3 ✓ sig.
positive regulation of DNA-templated transcription
ARNT, NFKB1, GATA3, HLA-DRB1, IRF1, IRF4, MYRF, NCOA1, TBX1, FOXO1, SMAD3, CEBPA
 GO:0045893 19 / 778 2.8× 4.59e-5 1.75e-3 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Pharyngeal disorder Upper respiratory tract disorder 0.333 13 3.63e-32 1.19e-30 ✓ sig.
Nasal polyp Seasonal allergic rhinitis 0.120 15 1.14e-23 2.58e-22 ✓ sig.
Nasal disorder Seasonal allergic rhinitis 0.088 10 8.98e-17 1.45e-15 ✓ sig.
Nasal disorder Nasal polyp 0.145 8 3.75e-16 5.79e-15 ✓ sig.
Nasal disorder Upper respiratory tract disorder 0.189 7 4.62e-16 7.04e-15 ✓ sig.
Seasonal allergic rhinitis Upper respiratory tract disorder 0.071 8 2.81e-13 3.57e-12 ✓ sig.
Nasal polyp Upper respiratory tract disorder 0.111 6 6.66e-12 7.40e-11 ✓ sig.
Nasal disorder Pharyngeal disorder 0.078 4 1.16e-7 8.06e-7 ✓ sig.
immunodeficiency, common variable, 12 Upper respiratory tract disorder 0.048 1 1.30e-3 2.06e-3 ✓ sig.
Intellectual developmental disorder dysmorphic macrocephaly Upper respiratory tract disorder 0.048 1 1.30e-3 2.06e-3 ✓ sig.
ciliary dyskinesia, primary, 41 Nasal disorder 0.042 1 1.49e-3 2.31e-3 ✓ sig.
ciliary dyskinesia, primary, 41 Pharyngeal disorder 0.031 1 2.01e-3 2.90e-3 ✓ sig.
immunodeficiency, common variable, 12 Pharyngeal disorder 0.031 1 2.01e-3 2.90e-3 ✓ sig.
Intellectual developmental disorder dysmorphic macrocephaly Pharyngeal disorder 0.031 1 2.01e-3 2.90e-3 ✓ sig.
immunodeficiency 104 Upper respiratory tract disorder 0.045 1 2.60e-3 3.51e-3 ✓ sig.
immunodeficiency 104 Nasal disorder 0.040 1 2.99e-3 3.95e-3 ✓ sig.