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 259

8 diseases · 16 shared-gene connections
8 Diseases
7 Unique genes
0.306 Avg. similarity score
Gastrin-producing neuroendocrine tumor Most-connected disease (5 links)
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Disease Searched: Multiple endocrine neoplasia type 4 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 ⇵
Gastrin-producing neuroendocrine tumor 5 5 1
Multiple endocrine neoplasia type 1 5 5 5
Pancreatic glucagonoma 5 5 1
Pancreatic somatostatinoma 5 5 2
Pituitary gigantism 5 5 2
Thyroid-stimulating hormone-secreting pituitary adenoma 5 5 1
Erythrocytosis, familial, 4 1 1 1
Multiple endocrine neoplasia type 4 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
MEN1 6 / 8 Gastrin-producing neuroendocrine tumor, Multiple endocrine neoplasia type 1, Pancreatic glucagonoma, Pancreatic somatostatinoma and 2 more
CDKN1B 2 / 8 Multiple endocrine neoplasia type 1, Multiple endocrine neoplasia type 4
EPAS1 2 / 8 Erythrocytosis, familial, 4, Pancreatic somatostatinoma
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 ⇵
Cushing syndrome
AIP, MEN1, CDKN1B, CDKN2B, CDKN2C, CDKN1A
 KEGG 6 / 155 66.4× 2.91e-11 3.98e-9 ✓ sig.
Cyclin D associated events in G1
CDKN1B, CDKN2B, CDKN2C, CDKN1A
 Reactome 4 / 44 156× 5.44e-9 4.28e-7 ✓ sig.
Senescence-Associated Secretory Phenotype (SASP)
CDKN1B, CDKN2B, CDKN2C, CDKN1A
 Reactome 4 / 111 61.8× 2.37e-7 1.19e-5 ✓ sig.
Cell cycle
CDKN1B, CDKN2B, CDKN2C, CDKN1A
 KEGG 4 / 158 43.4× 9.79e-7 4.09e-5 ✓ sig.
Transcriptional misregulation in cancer
MEN1, CDKN1B, CDKN2C, CDKN1A
 KEGG 4 / 198 34.7× 2.41e-6 8.85e-5 ✓ sig.
p53-Dependent G1 DNA Damage Response
CDKN1B, CDKN1A
 Reactome 2 / 7 490× 6.11e-6 1.94e-4 ✓ sig.
Small cell lung cancer
CDKN1B, CDKN2B, CDKN1A
 KEGG 3 / 93 55.3× 1.54e-5 4.19e-4 ✓ sig.
AKT phosphorylates targets in the cytosol
CDKN1B, CDKN1A
 Reactome 2 / 11 312× 1.60e-5 4.32e-4 ✓ sig.
Endocrine resistance
CDKN1B, CDKN2C, CDKN1A
 KEGG 3 / 99 52.0× 1.86e-5 4.90e-4 ✓ sig.
HIF-1 signaling pathway
CDKN1B, CDKN1A, EPAS1
 KEGG 3 / 110 46.8× 2.55e-5 6.37e-4 ✓ sig.
TP53 Regulates Transcription of Genes Involved in G1 Cell Cycle Arrest
CDKN1B, CDKN1A
 Reactome 2 / 14 245× 2.64e-5 6.54e-4 ✓ sig.
FoxO signaling pathway
CDKN1B, CDKN2B, CDKN1A
 KEGG 3 / 133 38.7× 4.50e-5 1.01e-3 ✓ sig.
Gastric cancer
CDKN1B, CDKN2B, CDKN1A
 KEGG 3 / 150 34.3× 6.44e-5 1.34e-3 ✓ sig.
Constitutive Signaling by AKT1 E17K in Cancer
CDKN1B, CDKN1A
 Reactome 2 / 25 137× 8.68e-5 1.70e-3 ✓ sig.
Cyclin E associated events during G1/S transition
CDKN1B, CDKN1A
 Reactome 2 / 28 123× 1.09e-4 2.04e-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 G1/S transition of mitotic cell cycle
CDKN1B, CDKN2B, CDKN2C, CDKN1A
 GO:2000045 4 / 57 187× 2.70e-9 5.55e-7 ✓ sig.
negative regulation of cardiac muscle tissue regeneration
CDKN1B, CDKN1A
 GO:1905179 2 / 2 2,670× 1.20e-7 1.48e-5 ✓ sig.
negative regulation of cell population proliferation
MEN1, CDKN1B, CDKN2B, CDKN2C, CDKN1A
 GO:0008285 5 / 444 30.1× 1.50e-7 1.79e-5 ✓ sig.
negative regulation of cyclin-dependent protein kinase activity
CDKN1B, CDKN1A
 GO:1904030 2 / 3 1,780× 3.61e-7 3.69e-5 ✓ sig.
cellular response to cell-matrix adhesion
CDKN2B, CDKN1A
 GO:0071460 2 / 4 1,335× 7.21e-7 6.58e-5 ✓ sig.
cellular senescence
CDKN1B, CDKN2B, CDKN1A
 GO:0090398 3 / 57 141× 9.34e-7 8.13e-5 ✓ sig.
negative regulation of cyclin-dependent protein serine/threonine kinase activity
MEN1, CDKN1B
 GO:0045736 2 / 9 593× 4.32e-6 2.82e-4 ✓ sig.
regulation of cell cycle G1/S phase transition
CDKN1B, CDKN1A
 GO:1902806 2 / 11 485× 6.60e-6 3.94e-4 ✓ sig.
negative regulation of cell growth
CDKN1B, CDKN2C, CDKN1A
 GO:0030308 3 / 115 69.6× 7.81e-6 4.51e-4 ✓ sig.
negative regulation of growth
CDKN1B, CDKN1A
 GO:0045926 2 / 18 297× 1.84e-5 8.67e-4 ✓ sig.
positive regulation of DNA replication
CDKN1B, CDKN1A
 GO:0045740 2 / 29 184× 4.86e-5 1.81e-3 ✓ sig.
positive regulation of transforming growth factor beta receptor signaling pathway
MEN1, CDKN2B
 GO:0030511 2 / 34 157× 6.71e-5 2.29e-3 ✓ sig.
negative regulation of vascular associated smooth muscle cell proliferation
CDKN1B, CDKN1A
 GO:1904706 2 / 43 124× 1.08e-4 3.27e-3 ✓ sig.
DNA damage response, signal transduction by p53 class mediator
CDKN1B, CDKN1A
 GO:0030330 2 / 48 111× 1.35e-4 3.82e-3 ✓ sig.
response to UV
MEN1, CDKN1A
 GO:0009411 2 / 54 98.9× 1.71e-4 4.53e-3 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Gastrin-producing neuroendocrine tumor Thyroid-stimulating hormone-secreting pituitary adenoma 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Gastrin-producing neuroendocrine tumor Pancreatic glucagonoma 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Pancreatic glucagonoma Thyroid-stimulating hormone-secreting pituitary adenoma 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Erythrocytosis, familial, 4 Pancreatic somatostatinoma 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Gastrin-producing neuroendocrine tumor Pituitary gigantism 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Pancreatic glucagonoma Pituitary gigantism 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Pancreatic somatostatinoma Thyroid-stimulating hormone-secreting pituitary adenoma 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Gastrin-producing neuroendocrine tumor Pancreatic somatostatinoma 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Pancreatic glucagonoma Pancreatic somatostatinoma 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Pituitary gigantism Thyroid-stimulating hormone-secreting pituitary adenoma 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Pancreatic somatostatinoma Pituitary gigantism 0.250 1 2.58e-4 5.38e-4 ✓ sig.
Multiple endocrine neoplasia type 1 Multiple endocrine neoplasia type 4 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Multiple endocrine neoplasia type 1 Thyroid-stimulating hormone-secreting pituitary adenoma 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Gastrin-producing neuroendocrine tumor Multiple endocrine neoplasia type 1 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Multiple endocrine neoplasia type 1 Pancreatic glucagonoma 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Multiple endocrine neoplasia type 1 Pituitary gigantism 0.143 1 6.46e-4 1.09e-3 ✓ sig.