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 261

7 diseases · 8 shared-gene connections
7 Diseases
53 Unique genes
0.128 Avg. similarity score
Cryptogenic multifocal ulcerous stenosing enteritis Most-connected disease (3 links)
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Disease Searched: Cytosolic phospholipase-a2 alpha deficiency associated bleeding disorder 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 ⇵
Cryptogenic multifocal ulcerous stenosing enteritis 3 3 1
Curling ulcer 3 3 6
Cytosolic phospholipase-a2 alpha deficiency associated bleeding disorder 3 3 1
Schizoaffective disorder 3 3 34
Diffuse gastric adenocarcinoma 2 2 16
Congenital cranial dysinnervation disorder 1 1 1
severe combined immunodeficiency due to LAT deficiency 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
PLA2G4A 4 / 7 Cryptogenic multifocal ulcerous stenosing enteritis, Curling ulcer, Cytosolic phospholipase-a2 alpha deficiency associated bleeding disorder, Schizoaffective disorder
ABO 2 / 7 Curling ulcer, Diffuse gastric adenocarcinoma
LAT 2 / 7 Diffuse gastric adenocarcinoma, severe combined immunodeficiency due to LAT deficiency
NEUROG1 2 / 7 Congenital cranial dysinnervation disorder, Schizoaffective disorder
PSCA 2 / 7 Curling ulcer, Diffuse gastric adenocarcinoma
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 ⇵
Retrograde endocannabinoid signaling
PTGS2, GRIA1, PRKCA, GABRA4, GABRB1
 KEGG 5 / 149 7.6× 4.88e-4 7.73e-3 ✓ sig.
Nicotine addiction
GRIA1, GABRA4, GABRB1
 KEGG 3 / 41 16.6× 7.68e-4 1.10e-2 ✓ sig.
Serotonergic synapse
PLA2G4A, PTGS2, PRKCA, GABRB1
 KEGG 4 / 115 7.9× 1.63e-3 1.96e-2 ✓ sig.
GABA receptor activation
GABRA4, GABRB1
 Reactome 2 / 16 28.3× 2.20e-3 2.45e-2 ✓ sig.
Syndecan interactions
TGFB1, PRKCA
 Reactome 2 / 16 28.3× 2.20e-3 2.45e-2 ✓ sig.
VEGF signaling pathway
PLA2G4A, PTGS2, PRKCA
 KEGG 3 / 60 11.3× 2.33e-3 2.55e-2 ✓ sig.
Long-term depression
PLA2G4A, GRIA1, PRKCA
 KEGG 3 / 60 11.3× 2.33e-3 2.55e-2 ✓ sig.
Trafficking of GluR2-containing AMPA receptors
GRIA1, PRKCA
 Reactome 2 / 17 26.7× 2.49e-3 2.68e-2 ✓ sig.
Fc epsilon RI signaling pathway
PLA2G4A, LAT, PRKCA
 KEGG 3 / 69 9.9× 3.46e-3 3.39e-2 ✓ sig.
Biosynthesis of EPA-derived SPMs
PTGS2
 Reactome 1 / 1 227× 4.41e-3 4.03e-2 ✓ sig.
Biosynthesis of DPAn-3 SPMs
PTGS2
 Reactome 1 / 1 227× 4.41e-3 4.03e-2 ✓ sig.
Leishmaniasis
NOS2, PTGS2, TGFB1
 KEGG 3 / 78 8.7× 4.89e-3 4.31e-2 ✓ sig.
Efferocytosis
PTGS2, TGFB1, CALR, STAB2
 KEGG 4 / 157 5.8× 5.01e-3 4.37e-2 ✓ sig.
GABAergic synapse
PRKCA, GABRA4, GABRB1
 KEGG 3 / 89 7.6× 7.05e-3 5.50e-2
Morphine addiction
PRKCA, GABRA4, GABRB1
 KEGG 3 / 91 7.5× 7.50e-3 5.72e-2

Enriched GO Terms (Biological Process, a second line of biological evidence)

GO term ⇵ GO ID ⇵ Overlap genes ⇵ Fold enrichment ⇵ P-value ⇵ FDR q-value ⇵
response to estradiol
TGFB1, CALR, GRIA1, PRKCA, PTCH1
 GO:0032355 5 / 84 21.0× 3.94e-6 2.49e-4 ✓ sig.
response to xenobiotic stimulus
TGFB1, CALR, EMX1, GRIA1, NPAS2, SST, PTCH1
 GO:0009410 7 / 248 10.0× 6.10e-6 3.55e-4 ✓ sig.
positive regulation of smooth muscle cell proliferation
TGFB1, CDH13, PDGFRB, PRKCA
 GO:0048661 4 / 52 27.1× 1.41e-5 6.89e-4 ✓ sig.
regulation of cell population proliferation
PLA2G4A, NOS2, PTGS2, TGFB1, SAT1, PTCH1
 GO:0042127 6 / 201 10.5× 2.17e-5 9.62e-4 ✓ sig.
regulation of transport
CDH13, PRKCA, PCLO
 GO:0051049 3 / 24 44.1× 4.18e-5 1.58e-3 ✓ sig.
positive regulation of exit from mitosis
NEUROG1, TGFB1
 GO:0031536 2 / 4 176× 4.72e-5 1.73e-3 ✓ sig.
prostaglandin secretion
NOS2, PTGS2
 GO:0032310 2 / 5 141× 7.85e-5 2.53e-3 ✓ sig.
conditioned place preference
CSMD1, GRIA1
 GO:1990708 2 / 6 118× 1.18e-4 3.42e-3 ✓ sig.
mammary gland development
TGFB1, CSMD1, PTCH1
 GO:0030879 3 / 37 28.6× 1.56e-4 4.24e-3 ✓ sig.
negative regulation of translation
LARP1, CALR, PRKCA, PURB
 GO:0017148 4 / 98 14.4× 1.71e-4 4.53e-3 ✓ sig.
mammary gland duct morphogenesis
CSMD1, PTCH1
 GO:0060603 2 / 8 88.1× 2.19e-4 5.36e-3 ✓ sig.
negative regulation of glial cell apoptotic process
PRKCA, RAD21
 GO:0034351 2 / 9 78.4× 2.81e-4 6.43e-3 ✓ sig.
positive regulation of gene expression
TGFB1, TGFBR3, CALR, GRIA1, SEC16B, RAD21, ZNF804A
 GO:0010628 7 / 504 4.9× 5.24e-4 9.98e-3 ✓ sig.
positive regulation of epithelial to mesenchymal transition
TGFB1, TNXB, TCF7L2
 GO:0010718 3 / 59 17.9× 6.26e-4 1.13e-2 ✓ sig.
regulation of postsynaptic membrane potential
GRIA1, GABRA4, GABRB1
 GO:0060078 3 / 59 17.9× 6.26e-4 1.13e-2 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Curling ulcer Diffuse gastric adenocarcinoma 0.095 2 1.51e-5 7.30e-5 ✓ sig.
Cryptogenic multifocal ulcerous stenosing enteritis Cytosolic phospholipase-a2 alpha deficiency associated bleeding disorder 0.500 1 6.49e-5 2.33e-4 ✓ sig.
Cryptogenic multifocal ulcerous stenosing enteritis Curling ulcer 0.143 1 3.90e-4 8.66e-4 ✓ sig.
Curling ulcer Cytosolic phospholipase-a2 alpha deficiency associated bleeding disorder 0.143 1 3.90e-4 8.66e-4 ✓ sig.
Diffuse gastric adenocarcinoma severe combined immunodeficiency due to LAT deficiency 0.059 1 1.04e-3 1.74e-3 ✓ sig.
Congenital cranial dysinnervation disorder Schizoaffective disorder 0.029 1 2.21e-3 3.11e-3 ✓ sig.
Cryptogenic multifocal ulcerous stenosing enteritis Schizoaffective disorder 0.029 1 2.21e-3 3.11e-3 ✓ sig.
Cytosolic phospholipase-a2 alpha deficiency associated bleeding disorder Schizoaffective disorder 0.029 1 2.21e-3 3.11e-3 ✓ sig.