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 219

8 diseases · 15 shared-gene connections
8 Diseases
10 Unique genes
0.266 Avg. similarity score
Dacryocystitis Most-connected disease (5 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 ⇵
Dacryocystitis 5 5 1
Interleukin 1 receptor antagonist deficiency 5 5 2
Multifocal osteomyelitis 5 5 4
Recurrent multifocal osteomyelitis 5 5 2
Sclerosis 5 5 1
Exanthema 3 3 6
Majeed syndrome 1 1 1
ectodermal dysplasia and immunodeficiency 2 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
IL1RN 6 / 8 Dacryocystitis, Exanthema, Interleukin 1 receptor antagonist deficiency, Multifocal osteomyelitis and 2 more
IL1R1 2 / 8 Multifocal osteomyelitis, Recurrent multifocal osteomyelitis
LPIN2 2 / 8 Majeed syndrome, Multifocal osteomyelitis
NFKBIA 2 / 8 ectodermal dysplasia and immunodeficiency 2, Interleukin 1 receptor antagonist deficiency
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 ⇵
Alcoholic liver disease
LPIN2, C1QA, LBP, NFKBIA
 KEGG 4 / 144 33.4× 3.94e-6 1.56e-4 ✓ sig.
Interleukin-1 signaling
IL1R1, IL1RN, NFKBIA
 Reactome 3 / 88 40.9× 4.40e-5 1.15e-3 ✓ sig.
NF-kappa B signaling pathway
IL1R1, LBP, NFKBIA
 KEGG 3 / 105 34.3× 7.45e-5 1.76e-3 ✓ sig.
Interleukin-10 signaling
IL1R1, IL1RN
 Reactome 2 / 47 51.1× 6.61e-4 9.91e-3 ✓ sig.
Human T-cell leukemia virus 1 infection
IL1R1, HLA-B, NFKBIA
 KEGG 3 / 224 16.1× 6.97e-4 1.03e-2 ✓ sig.
Human cytomegalovirus infection
IL1R1, HLA-B, NFKBIA
 KEGG 3 / 226 15.9× 7.16e-4 1.05e-2 ✓ sig.
Coronavirus disease - COVID-19
C1QA, VWF, NFKBIA
 KEGG 3 / 238 15.1× 8.32e-4 1.18e-2 ✓ sig.
Transfer of LPS from LBP carrier to CD14
LBP
 Reactome 1 / 2 601× 1.66e-3 2.00e-2 ✓ sig.
Cytosolic DNA-sensing pathway
MLKL, NFKBIA
 KEGG 2 / 83 28.9× 2.05e-3 2.32e-2 ✓ sig.
Complement and coagulation cascades
C1QA, VWF
 KEGG 2 / 88 27.3× 2.30e-3 2.53e-2 ✓ sig.
Chagas disease
C1QA, NFKBIA
 KEGG 2 / 103 23.3× 3.13e-3 3.18e-2 ✓ sig.
Toll-like receptor signaling pathway
LBP, NFKBIA
 KEGG 2 / 109 22.0× 3.50e-3 3.43e-2 ✓ sig.
Th17 cell differentiation
IL1R1, NFKBIA
 KEGG 2 / 109 22.0× 3.50e-3 3.43e-2 ✓ sig.
TNF signaling pathway
MLKL, NFKBIA
 KEGG 2 / 119 20.2× 4.16e-3 3.87e-2 ✓ sig.
Classical antibody-mediated complement activation
C1QA
 Reactome 1 / 6 200× 4.99e-3 4.37e-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 ⇵
interleukin-1-mediated signaling pathway
IL1R1, NFKBIA
 GO:0070498 2 / 28 133× 9.67e-5 2.95e-3 ✓ sig.
acute-phase response
IL1RN, LBP
 GO:0006953 2 / 37 101× 1.70e-4 4.50e-3 ✓ sig.
lipopolysaccharide-mediated signaling pathway
LBP, NFKBIA
 GO:0031663 2 / 38 98.4× 1.79e-4 4.68e-3 ✓ sig.
positive regulation of interleukin-1-mediated signaling pathway
IL1R1
 GO:2000661 1 / 1 1,869× 5.35e-4 9.98e-3 ✓ sig.
immune system process
C1QA, HLA-B, LBP, NFKBIA
 GO:0002376 4 / 943 7.9× 1.06e-3 1.57e-2 ✓ sig.
lipopolysaccharide transport
LBP
 GO:0015920 1 / 2 934× 1.07e-3 1.57e-2 ✓ sig.
positive regulation of respiratory burst involved in inflammatory response
LBP
 GO:0060265 1 / 2 934× 1.07e-3 1.57e-2 ✓ sig.
isopentenyl diphosphate biosynthetic process, mevalonate pathway
MVK
 GO:0019287 1 / 3 623× 1.60e-3 1.98e-2 ✓ sig.
vertebrate eye-specific patterning
C1QA
 GO:0150064 1 / 3 623× 1.60e-3 1.98e-2 ✓ sig.
detection of molecule of bacterial origin
LBP
 GO:0032490 1 / 3 623× 1.60e-3 1.98e-2 ✓ sig.
execution phase of necroptosis
MLKL
 GO:0097528 1 / 3 623× 1.60e-3 1.98e-2 ✓ sig.
inflammatory response
IL1R1, IL1RN, NFKBIA
 GO:0006954 3 / 467 12.0× 1.63e-3 2.01e-2 ✓ sig.
negative regulation of cholesterol transport
NFKBIA
 GO:0032375 1 / 4 467× 2.14e-3 2.34e-2 ✓ sig.
regulation of interleukin-12 production
HLA-B
 GO:0032655 1 / 4 467× 2.14e-3 2.34e-2 ✓ sig.
regulation of dendritic cell differentiation
HLA-B
 GO:2001198 1 / 4 467× 2.14e-3 2.34e-2 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Multifocal osteomyelitis Recurrent multifocal osteomyelitis 0.400 2 5.06e-8 3.92e-7 ✓ sig.
Dacryocystitis Sclerosis 0.500 1 6.49e-5 2.34e-4 ✓ sig.
Dacryocystitis Recurrent multifocal osteomyelitis 0.333 1 1.30e-4 3.90e-4 ✓ sig.
Dacryocystitis Interleukin 1 receptor antagonist deficiency 0.333 1 1.30e-4 3.90e-4 ✓ sig.
ectodermal dysplasia and immunodeficiency 2 Interleukin 1 receptor antagonist deficiency 0.333 1 1.30e-4 3.90e-4 ✓ sig.
Interleukin 1 receptor antagonist deficiency Sclerosis 0.333 1 1.30e-4 3.90e-4 ✓ sig.
Recurrent multifocal osteomyelitis Sclerosis 0.333 1 1.30e-4 3.90e-4 ✓ sig.
Interleukin 1 receptor antagonist deficiency Recurrent multifocal osteomyelitis 0.250 1 2.60e-4 6.40e-4 ✓ sig.
Dacryocystitis Multifocal osteomyelitis 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Majeed syndrome Multifocal osteomyelitis 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Multifocal osteomyelitis Sclerosis 0.200 1 2.60e-4 6.40e-4 ✓ sig.
Dacryocystitis Exanthema 0.143 1 3.90e-4 8.52e-4 ✓ sig.
Exanthema Sclerosis 0.143 1 3.90e-4 8.52e-4 ✓ sig.
Interleukin 1 receptor antagonist deficiency Multifocal osteomyelitis 0.167 1 5.19e-4 1.04e-3 ✓ sig.
Exanthema Recurrent multifocal osteomyelitis 0.125 1 7.79e-4 1.39e-3 ✓ sig.