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 87

13 diseases · 48 shared-gene connections
13 Diseases
10 Unique genes
0.420 Avg. similarity score
Fibrous dysplasia Most-connected disease (12 links)
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Disease Searched: Mccune-albright syndrome 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 ⇵
Fibrous dysplasia 12 12 1
Osteoma cutis 12 12 1
Ovarian leydig cell tumor 12 12 1
Ovarian sclerosing stromal tumor 12 12 1
Mucinous adenocarcinoma of the appendix 9 9 2
Albright hereditary osteodystrophy 5 5 1
Macronodular adrenal hyperplasia 5 5 2
Mccune-albright syndrome 5 5 1
Mixed somatotroph-lactotroph pituitary gland adenoma 5 5 2
Osseous heteroplasia, progressive 5 5 1
Primary bilateral macronodular adrenal hyperplasia 5 5 3
Pseudopseudohypoparathyroidism 5 5 1
Exocrine pancreatic carcinoma 4 4 6

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

Gene ⇵ Member diseases ⇵ Linked diseases
GNAS 13 / 13 Albright hereditary osteodystrophy, Exocrine pancreatic carcinoma, Fibrous dysplasia, Macronodular adrenal hyperplasia and 9 more
ARMC5 2 / 13 Macronodular adrenal hyperplasia, Primary bilateral macronodular adrenal hyperplasia
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
ARMC5, GNAS, MEN1, BRAF
 KEGG 4 / 155 31.0× 5.28e-6 1.72e-4 ✓ sig.
Long-term depression
GNAS, BRAF, KRAS
 KEGG 3 / 60 60.1× 1.39e-5 3.82e-4 ✓ sig.
Pancreatic cancer
JAK1, BRAF, KRAS
 KEGG 3 / 77 46.8× 2.94e-5 7.13e-4 ✓ sig.
EGFR tyrosine kinase inhibitor resistance
JAK1, BRAF, KRAS
 KEGG 3 / 80 45.0× 3.30e-5 7.85e-4 ✓ sig.
Endocrine resistance
GNAS, BRAF, KRAS
 KEGG 3 / 99 36.4× 6.25e-5 1.30e-3 ✓ sig.
Serotonergic synapse
GNAS, BRAF, KRAS
 KEGG 3 / 115 31.3× 9.77e-5 1.86e-3 ✓ sig.
Vascular smooth muscle contraction
GNAS, BRAF, MYH11
 KEGG 3 / 134 26.9× 1.54e-4 2.67e-3 ✓ sig.
Hepatitis C
JAK1, BRAF, KRAS
 KEGG 3 / 159 22.7× 2.55e-4 3.97e-3 ✓ sig.
Hepatitis B
JAK1, BRAF, KRAS
 KEGG 3 / 163 22.1× 2.75e-4 4.21e-3 ✓ sig.
RAF activation
BRAF, KRAS
 Reactome 2 / 32 75.1× 3.05e-4 4.57e-3 ✓ sig.
Signaling by high-kinase activity BRAF mutants
BRAF, KRAS
 Reactome 2 / 36 66.7× 3.87e-4 5.48e-3 ✓ sig.
Thyroid cancer
BRAF, KRAS
 KEGG 2 / 37 64.9× 4.09e-4 5.72e-3 ✓ sig.
Alcoholism
GNAS, BRAF, KRAS
 KEGG 3 / 188 19.2× 4.18e-4 5.81e-3 ✓ sig.
Negative regulation of MAPK pathway
BRAF, KRAS
 Reactome 2 / 38 63.2× 4.32e-4 5.96e-3 ✓ sig.
MAP2K and MAPK activation
BRAF, KRAS
 Reactome 2 / 40 60.1× 4.79e-4 6.46e-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 ⇵
CD4-positive, alpha-beta T cell differentiation
ARMC5, BRAF
 GO:0043367 2 / 7 534× 5.40e-6 3.36e-4 ✓ sig.
MAPK cascade
MEN1, BRAF, KRAS
 GO:0000165 3 / 147 38.1× 5.50e-5 1.98e-3 ✓ sig.
visual learning
BRAF, KRAS
 GO:0008542 2 / 54 69.2× 3.63e-4 7.69e-3 ✓ sig.
adrenal cortex development
ARMC5
 GO:0035801 1 / 1 1,869× 5.35e-4 9.88e-3 ✓ sig.
response to mineralocorticoid
KRAS
 GO:0051385 1 / 1 1,869× 5.35e-4 9.88e-3 ✓ sig.
female pregnancy
GNAS, KRAS
 GO:0007565 2 / 80 46.7× 7.97e-4 1.28e-2 ✓ sig.
guanine metabolic process
KDM1A
 GO:0046098 1 / 2 934× 1.07e-3 1.51e-2 ✓ sig.
positive regulation of cold-induced thermogenesis
GNAS, KDM1A
 GO:0120162 2 / 102 36.6× 1.29e-3 1.67e-2 ✓ sig.
positive T cell selection
BRAF
 GO:0043368 1 / 3 623× 1.60e-3 1.88e-2 ✓ sig.
CD4-positive or CD8-positive, alpha-beta T cell lineage commitment
BRAF
 GO:0043369 1 / 3 623× 1.60e-3 1.88e-2 ✓ sig.
negative regulation of transcription initiation-coupled chromatin remodeling
KDM1A
 GO:0160217 1 / 3 623× 1.60e-3 1.88e-2 ✓ sig.
forebrain astrocyte development
KRAS
 GO:0021897 1 / 3 623× 1.60e-3 1.88e-2 ✓ sig.
skeletal muscle myosin thick filament assembly
MYH11
 GO:0030241 1 / 3 623× 1.60e-3 1.88e-2 ✓ sig.
response to isolation stress
KRAS
 GO:0035900 1 / 4 467× 2.14e-3 2.19e-2 ✓ sig.
cytokine-mediated signaling pathway
JAK1, KRAS
 GO:0019221 2 / 145 25.8× 2.58e-3 2.41e-2 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Macronodular adrenal hyperplasia Primary bilateral macronodular adrenal hyperplasia 0.500 2 2.50e-8 1.87e-7 ✓ sig.
Osseous heteroplasia, progressive Ovarian leydig cell tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fibrous dysplasia Mccune-albright syndrome 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mccune-albright syndrome Ovarian sclerosing stromal tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mccune-albright syndrome Mucinous adenocarcinoma of the appendix 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mucinous adenocarcinoma of the appendix Osteoma cutis 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mucinous adenocarcinoma of the appendix Ovarian leydig cell tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mucinous adenocarcinoma of the appendix Ovarian sclerosing stromal tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mucinous adenocarcinoma of the appendix Osseous heteroplasia, progressive 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Osseous heteroplasia, progressive Osteoma cutis 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Albright hereditary osteodystrophy Ovarian leydig cell tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Osseous heteroplasia, progressive Ovarian sclerosing stromal tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Osteoma cutis Ovarian leydig cell tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Osteoma cutis Ovarian sclerosing stromal tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Ovarian leydig cell tumor Ovarian sclerosing stromal tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Osteoma cutis Pseudopseudohypoparathyroidism 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Ovarian leydig cell tumor Pseudopseudohypoparathyroidism 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fibrous dysplasia Pseudopseudohypoparathyroidism 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Ovarian sclerosing stromal tumor Pseudopseudohypoparathyroidism 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mucinous adenocarcinoma of the appendix Pseudopseudohypoparathyroidism 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fibrous dysplasia Ovarian leydig cell tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Albright hereditary osteodystrophy Osteoma cutis 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Albright hereditary osteodystrophy Fibrous dysplasia 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Albright hereditary osteodystrophy Ovarian sclerosing stromal tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Albright hereditary osteodystrophy Mucinous adenocarcinoma of the appendix 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fibrous dysplasia Osteoma cutis 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mccune-albright syndrome Ovarian leydig cell tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fibrous dysplasia Ovarian sclerosing stromal tumor 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fibrous dysplasia Mucinous adenocarcinoma of the appendix 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Fibrous dysplasia Osseous heteroplasia, progressive 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Mccune-albright syndrome Osteoma cutis 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Macronodular adrenal hyperplasia Ovarian leydig cell tumor 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Macronodular adrenal hyperplasia Ovarian sclerosing stromal tumor 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Fibrous dysplasia Macronodular adrenal hyperplasia 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Mixed somatotroph-lactotroph pituitary gland adenoma Osteoma cutis 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Mixed somatotroph-lactotroph pituitary gland adenoma Ovarian leydig cell tumor 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Fibrous dysplasia Mixed somatotroph-lactotroph pituitary gland adenoma 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Mixed somatotroph-lactotroph pituitary gland adenoma Ovarian sclerosing stromal tumor 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Mixed somatotroph-lactotroph pituitary gland adenoma Mucinous adenocarcinoma of the appendix 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Macronodular adrenal hyperplasia Osteoma cutis 0.333 1 1.29e-4 3.27e-4 ✓ sig.
Osteoma cutis Primary bilateral macronodular adrenal hyperplasia 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Ovarian leydig cell tumor Primary bilateral macronodular adrenal hyperplasia 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Fibrous dysplasia Primary bilateral macronodular adrenal hyperplasia 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Ovarian sclerosing stromal tumor Primary bilateral macronodular adrenal hyperplasia 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Exocrine pancreatic carcinoma Ovarian sclerosing stromal tumor 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Exocrine pancreatic carcinoma Fibrous dysplasia 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Exocrine pancreatic carcinoma Ovarian leydig cell tumor 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Exocrine pancreatic carcinoma Osteoma cutis 0.167 1 3.23e-4 6.41e-4 ✓ sig.