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 248

7 diseases · 11 shared-gene connections
7 Diseases
12 Unique genes
0.246 Avg. similarity score
Headache 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 ⇵
Headache 5 5 10
Angiofollicular ganglionic hyperplasia 4 4 1
Angiolymphoid hyperplasia 4 4 1
Castleman disease 4 4 1
Intracranial arteriovenous malformation 3 3 3
Congenital microtia 1 1 1
short stature, amelogenesis imperfecta, and skeletal dysplasia with scoliosis 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
IL6 5 / 7 Angiofollicular ganglionic hyperplasia, Angiolymphoid hyperplasia, Castleman disease, Headache and 1 more
PRKRA 2 / 7 Congenital microtia, Headache
SLC10A7 2 / 7 Headache, short stature, amelogenesis imperfecta, and skeletal dysplasia with scoliosis
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 ⇵
PI3K-Akt signaling pathway
IL6, CSF3, IFNA2, KRAS
 KEGG 4 / 361 11.1× 3.28e-4 5.76e-3 ✓ sig.
Hepatitis B
IL6, IFNA2, KRAS
 KEGG 3 / 163 18.4× 4.93e-4 7.89e-3 ✓ sig.
JAK-STAT signaling pathway
IL6, CSF3, IFNA2
 KEGG 3 / 168 17.9× 5.39e-4 8.44e-3 ✓ sig.
Kaposi sarcoma-associated herpesvirus infection
IL6, IFNA2, KRAS
 KEGG 3 / 196 15.3× 8.45e-4 1.19e-2 ✓ sig.
Interleukin-10 signaling
IL6, CSF3
 Reactome 2 / 47 42.6× 9.65e-4 1.32e-2 ✓ sig.
Vitamin E
TTPA
 Reactome 1 / 1 1,001× 9.99e-4 1.35e-2 ✓ sig.
Malaria
IL6, CSF3
 KEGG 2 / 50 40.0× 1.09e-3 1.45e-2 ✓ sig.
Lipid and atherosclerosis
IL6, IFNA2, KRAS
 KEGG 3 / 216 13.9× 1.12e-3 1.48e-2 ✓ sig.
Human cytomegalovirus infection
IL6, IFNA2, KRAS
 KEGG 3 / 226 13.3× 1.28e-3 1.63e-2 ✓ sig.
Coronavirus disease - COVID-19
IL6, CSF3, IFNA2
 KEGG 3 / 238 12.6× 1.48e-3 1.83e-2 ✓ sig.
GnRH secretion
GNRH1, KRAS
 KEGG 2 / 65 30.8× 1.84e-3 2.14e-2 ✓ sig.
EGFR tyrosine kinase inhibitor resistance
IL6, KRAS
 KEGG 2 / 80 25.0× 2.77e-3 2.90e-2 ✓ sig.
Cytokine-cytokine receptor interaction
IL6, CSF3, IFNA2
 KEGG 3 / 298 10.1× 2.82e-3 2.94e-2 ✓ sig.
Cytosolic DNA-sensing pathway
IL6, IFNA2
 KEGG 2 / 83 24.1× 2.98e-3 3.06e-2 ✓ sig.
RAS GTPase cycle mutants
KRAS
 Reactome 1 / 3 334× 2.99e-3 3.07e-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 ⇵
response to glucocorticoid
IL6, OXT, KRAS
 GO:0051384 3 / 53 88.1× 4.65e-6 2.84e-4 ✓ sig.
female pregnancy
GNRH1, OXT, KRAS
 GO:0007565 3 / 80 58.4× 1.62e-5 7.62e-4 ✓ sig.
response to prostaglandin E
GNRH1, OXT
 GO:0034695 2 / 11 283× 2.07e-5 9.23e-4 ✓ sig.
positive regulation of ossification
OXT, NIPBL
 GO:0045778 2 / 21 148× 7.88e-5 2.53e-3 ✓ sig.
positive regulation of glial cell proliferation
IL6, KRAS
 GO:0060252 2 / 22 142× 8.67e-5 2.72e-3 ✓ sig.
cytokine-mediated signaling pathway
IL6, CSF3, KRAS
 GO:0019221 3 / 145 32.2× 9.56e-5 2.92e-3 ✓ sig.
cell surface receptor signaling pathway via STAT
IL6, IFNA2
 GO:0097696 2 / 28 111× 1.42e-4 3.92e-3 ✓ sig.
response to steroid hormone
GNRH1, OXT
 GO:0048545 2 / 30 104× 1.63e-4 4.36e-3 ✓ sig.
response to peptide hormone
GNRH1, OXT
 GO:0043434 2 / 50 62.3× 4.55e-4 8.97e-3 ✓ sig.
response to activity
IL6, OXT
 GO:0014823 2 / 52 59.9× 4.92e-4 9.45e-3 ✓ sig.
humoral immune response
IL6, IFNA2
 GO:0006959 2 / 58 53.7× 6.13e-4 1.10e-2 ✓ sig.
heart development
OXT, NIPBL, ENG
 GO:0007507 3 / 273 17.1× 6.15e-4 1.11e-2 ✓ sig.
regulation of cardiac neural crest cell migration involved in outflow tract morphogenesis
ENG
 GO:1905310 1 / 1 1,557× 6.42e-4 1.13e-2 ✓ sig.
regulation of cell proliferation involved in heart morphogenesis
ENG
 GO:2000136 1 / 1 1,557× 6.42e-4 1.13e-2 ✓ sig.
regulation of astrocyte activation
IL6
 GO:0061888 1 / 1 1,557× 6.42e-4 1.13e-2 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Angiofollicular ganglionic hyperplasia Angiolymphoid hyperplasia 0.500 1 6.49e-5 2.34e-4 ✓ sig.
Angiofollicular ganglionic hyperplasia Castleman disease 0.500 1 6.49e-5 2.34e-4 ✓ sig.
Angiolymphoid hyperplasia Castleman disease 0.500 1 6.49e-5 2.34e-4 ✓ sig.
Angiofollicular ganglionic hyperplasia Intracranial arteriovenous malformation 0.250 1 1.95e-4 5.28e-4 ✓ sig.
Angiolymphoid hyperplasia Intracranial arteriovenous malformation 0.250 1 1.95e-4 5.28e-4 ✓ sig.
Castleman disease Intracranial arteriovenous malformation 0.250 1 1.95e-4 5.28e-4 ✓ sig.
Congenital microtia Headache 0.091 1 6.49e-4 1.22e-3 ✓ sig.
Angiofollicular ganglionic hyperplasia Headache 0.091 1 6.49e-4 1.22e-3 ✓ sig.
Angiolymphoid hyperplasia Headache 0.091 1 6.49e-4 1.22e-3 ✓ sig.
Castleman disease Headache 0.091 1 6.49e-4 1.22e-3 ✓ sig.
Headache short stature, amelogenesis imperfecta, and skeletal dysplasia with scoliosis 0.091 1 6.49e-4 1.22e-3 ✓ sig.