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 76

12 diseases · 21 shared-gene connections
12 Diseases
139 Unique genes
0.129 Avg. similarity score
Diabetic angiopathies Most-connected disease (7 links)
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Disease Searched: Brain neoplasms 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 ⇵
Diabetic angiopathies 7 7 28
Diabetes microvascular complications 6 6 6
Diabetic peripheral angiopathy 6 6 28
Diabetes complications 5 5 12
Liver failure 4 4 52
Brain neoplasms 3 3 38
Transient ischemic attack 3 3 24
autoimmune lymphoproliferative syndrome type 1 3 3 1
Choroidal neovascularization 2 2 1
Bile acid malabsorption 1 1 3
Brain cancer 1 1 5
Dihydropteridine reductase deficiency 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
VEGFA 7 / 12 Brain neoplasms, Choroidal neovascularization, Diabetes complications, Diabetes microvascular complications and 3 more
IL1RN 5 / 12 Diabetes microvascular complications, Diabetic angiopathies, Diabetic peripheral angiopathy, Liver failure and 1 more
PON1 5 / 12 Brain neoplasms, Diabetes complications, Diabetes microvascular complications, Diabetic angiopathies and 1 more
SOD2 5 / 12 Brain neoplasms, Diabetes microvascular complications, Diabetic angiopathies, Diabetic peripheral angiopathy and 1 more
EPO 4 / 12 Diabetes microvascular complications, Diabetic angiopathies, Diabetic peripheral angiopathy, Transient ischemic attack
FASLG 4 / 12 autoimmune lymphoproliferative syndrome type 1, Diabetic angiopathies, Diabetic peripheral angiopathy, Liver failure
ALB 3 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy, Liver failure
ASS1 3 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy, Liver failure
HP 3 / 12 Diabetes complications, Diabetic angiopathies, Diabetic peripheral angiopathy
RELA 3 / 12 Brain neoplasms, Diabetic angiopathies, Diabetic peripheral angiopathy
SERPINF1 3 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy, Transient ischemic attack
TNF 3 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy, Liver failure
ADCY3 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
ADCY8 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
AGER 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
APOBEC3C 2 / 12 Brain cancer, Brain neoplasms
CASP3 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
CCT6B 2 / 12 Brain cancer, Brain neoplasms
CREM 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
CSF3 2 / 12 Liver failure, Transient ischemic attack
CXCL12 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
FCHO2 2 / 12 Brain cancer, Brain neoplasms
FOXN3 2 / 12 Brain cancer, Brain neoplasms
GCH1 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
HLA-DRB1 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
HMOX1 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
IGFBP1 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
MTHFR 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
NOS3 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
PLAT 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
QDPR 2 / 12 Dihydropteridine reductase deficiency, Liver failure
SERPINE1 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
SLC10A2 2 / 12 Bile acid malabsorption, Diabetes complications
SLC51B 2 / 12 Bile acid malabsorption, Diabetes complications
THBS1 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
THBS2 2 / 12 Diabetic angiopathies, Diabetic peripheral angiopathy
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 ⇵
Pathways in cancer
TERT, ALK, CCND1, CDK4, CDKN2A, DAPK1, DLL1, EML4, HES5, HRAS, IL2, PTCH1
 KEGG 32 / 533 5.2× 7.27e-15 2.15e-12 ✓ sig.
Alcoholic liver disease
CCND1, RELA, SIRT1, ALDH2, CASP3, FASLG, TNF, ACADM, ADH1A, ADH1B, FABP1, FAS
 KEGG 14 / 144 8.4× 1.09e-9 1.15e-7 ✓ sig.
AGE-RAGE signaling pathway in diabetic complications
CCND1, CDK4, HRAS, RELA, TGFBR2, VEGFA, AGER, CASP3, NOS3, SERPINE1, TNF, MAPK8
 KEGG 12 / 101 10.3× 1.77e-9 1.76e-7 ✓ sig.
Human cytomegalovirus infection
CCND1, CDK4, CDKN2A, HRAS, RELA, VEGFA, ADCY3, ADCY8, CASP3, CXCL12, FASLG, TNF
 KEGG 15 / 226 5.7× 5.11e-8 3.50e-6 ✓ sig.
Non-small cell lung cancer
ALK, CCND1, CDK4, CDKN2A, EML4, HRAS, HGF, BAD, CASP9
 KEGG 9 / 73 10.7× 1.49e-7 8.95e-6 ✓ sig.
Platinum drug resistance
CDKN2A, CASP3, FASLG, ATP7B, FAS, BAD, CASP9, CYCS, ERCC1
 KEGG 9 / 75 10.4× 1.89e-7 1.10e-5 ✓ sig.
p53 signaling pathway
CCND1, CDK4, CDKN2A, CASP3, SERPINE1, THBS1, FAS, CASP9, CYCS
 KEGG 9 / 75 10.4× 1.89e-7 1.10e-5 ✓ sig.
Lipid and atherosclerosis
CYP2C9, HRAS, RELA, SOD2, AGER, CASP3, FASLG, NOS3, TNF, FAS, MAPK8, BAD
 KEGG 14 / 216 5.6× 1.96e-7 1.13e-5 ✓ sig.
Endocrine resistance
CCND1, CDK4, CDKN2A, DLL1, HRAS, ADCY3, ADCY8, MAPK8, BAD, NOTCH3
 KEGG 10 / 99 8.7× 2.02e-7 1.16e-5 ✓ sig.
Pancreatic cancer
CCND1, CDK4, CDKN2A, RELA, TGFBR2, VEGFA, MAPK8, BAD, CASP9
 KEGG 9 / 77 10.1× 2.38e-7 1.34e-5 ✓ sig.
Chagas disease
IL2, RELA, TGFBR2, FASLG, SERPINE1, TNF, FAS, MAPK8, ACE, C3
 KEGG 10 / 103 8.4× 2.94e-7 1.62e-5 ✓ sig.
Human T-cell leukemia virus 1 infection
TERT, CCND1, CDK4, CDKN2A, HRAS, IL2, ITGB2, RELA, TGFBR2, ADCY3, ADCY8, HLA-DRB1
 KEGG 14 / 224 5.4× 3.07e-7 1.67e-5 ✓ sig.
Bladder cancer
CCND1, CDK4, CDKN2A, DAPK1, HRAS, VEGFA, THBS1
 KEGG 7 / 41 14.8× 3.87e-7 2.05e-5 ✓ sig.
Hepatitis B
HRAS, PCNA, RELA, TGFBR2, CASP3, FASLG, TNF, FAS, MAPK8, BAD, CASP9, CYCS
 KEGG 12 / 163 6.4× 3.92e-7 2.07e-5 ✓ sig.
Interleukin-4 and Interleukin-13 signaling
CCND1, ITGB2, SOX2, VEGFA, HIF1A, FASLG, HMOX1, TNF, HGF, POMC
 Reactome 10 / 108 8.0× 4.60e-7 2.38e-5 ✓ 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 ⇵
positive regulation of cell population proliferation
CCND1, CDK4, DLL1, HES5, HRAS, IL2, RELA, S100B, SIRT1, SMO, TGFBR2, VEGFA
 GO:0008284 25 / 532 6.3× 1.56e-13 8.19e-11 ✓ sig.
negative regulation of apoptotic process
TERT, DAPK1, IL2, MGMT, RELA, SIRT1, SMO, SOD2, VEGFA, AKR1B1, HIF1A, EPO
 GO:0043066 23 / 524 5.9× 6.59e-12 2.52e-9 ✓ sig.
response to hypoxia
SOD2, VEGFA, HIF1A, AGER, CASP3, CXCL12, EPO, MTHFR, PLAT, THBS1, TNF, F7
 GO:0001666 14 / 176 10.7× 5.41e-11 1.69e-8 ✓ sig.
positive regulation of apoptotic process
CDKN2A, DAPK1, S100B, SIRT1, TGM2, CASP3, FASLG, TNF, ATG7, FAS, MAPK8, BAD
 GO:0043065 16 / 326 6.6× 2.78e-9 5.47e-7 ✓ sig.
acute-phase response
HP, ASS1, EPO, IL1RN, F2, ORM1, INS
 GO:0006953 7 / 37 25.4× 9.25e-9 1.58e-6 ✓ sig.
extrinsic apoptotic signaling pathway
YAP1, FASLG, TNF, FAS, INHBA, KRT18, KRT8, BAD
 GO:0097191 8 / 57 18.9× 9.30e-9 1.58e-6 ✓ sig.
response to hydrogen peroxide
RELA, SIRT1, SOD2, HP, CASP3, HMOX1, SOD1
 GO:0042542 7 / 39 24.1× 1.36e-8 2.22e-6 ✓ sig.
positive regulation of angiogenesis
TERT, ITGB2, SIRT1, TGFBR2, VEGFA, HIF1A, HMOX1, NOS3, SERPINE1, THBS1, C3
 GO:0045766 11 / 159 9.3× 2.93e-8 4.25e-6 ✓ sig.
vasodilation
SOD2, VEGFA, NOS3, TNF, INS, ACE, ADORA1
 GO:0042311 7 / 50 18.8× 8.28e-8 1.02e-5 ✓ sig.
positive regulation of MAPK cascade
HRAS, IQGAP1, SOX2, VEGFA, HLA-DRB1, THBS1, TNF, CD74, HGF, INS, ADORA1, SOD1
 GO:0043410 12 / 224 7.2× 1.15e-7 1.35e-5 ✓ sig.
negative regulation of epithelial cell differentiation
CCND1, DLL1, SMO, YAP1, FST
 GO:0030857 5 / 17 39.5× 1.22e-7 1.42e-5 ✓ sig.
response to glucocorticoid
CCND1, S100B, ASS1, CASP3, IL1RN, TNF, GOT1
 GO:0051384 7 / 53 17.8× 1.25e-7 1.45e-5 ✓ sig.
response to nutrient levels
SOD2, ALB, TNF, ATG7, F7, FBP1, GC, SOD1
 GO:0031667 8 / 79 13.6× 1.28e-7 1.48e-5 ✓ sig.
response to ethanol
CCND1, IL2, RELA, S100B, SOX2, NR0B2, TNF, CSF3, SOD1
 GO:0045471 9 / 110 11.0× 1.32e-7 1.52e-5 ✓ sig.
intrinsic apoptotic signaling pathway in response to DNA damage
SIRT1, SOD2, TNF, BAD, BCL2L2, CASP9, HTRA2
 GO:0008630 7 / 54 17.4× 1.43e-7 1.63e-5 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Diabetic angiopathies Diabetic peripheral angiopathy 0.966 28 1.76e-88 1.55e-86 ✓ sig.
Diabetes microvascular complications Diabetic peripheral angiopathy 0.167 5 8.17e-14 1.06e-12 ✓ sig.
Diabetes microvascular complications Diabetic angiopathies 0.167 5 8.17e-14 1.06e-12 ✓ sig.
Brain cancer Brain neoplasms 0.100 4 1.57e-10 1.54e-9 ✓ sig.
Diabetic peripheral angiopathy Liver failure 0.080 6 3.92e-10 3.69e-9 ✓ sig.
Diabetic angiopathies Liver failure 0.080 6 3.92e-10 3.69e-9 ✓ sig.
Diabetes microvascular complications Transient ischemic attack 0.107 3 6.63e-8 4.81e-7 ✓ sig.
Diabetic peripheral angiopathy Transient ischemic attack 0.082 4 9.06e-8 6.36e-7 ✓ sig.
Diabetic angiopathies Transient ischemic attack 0.082 4 9.06e-8 6.36e-7 ✓ sig.
Brain neoplasms Diabetes microvascular complications 0.071 3 2.76e-7 1.80e-6 ✓ sig.
Brain neoplasms Diabetic angiopathies 0.063 4 6.19e-7 3.77e-6 ✓ sig.
Diabetes complications Diabetic angiopathies 0.079 3 1.17e-6 6.80e-6 ✓ sig.
Diabetes complications Diabetic peripheral angiopathy 0.079 3 1.17e-6 6.80e-6 ✓ sig.
Bile acid malabsorption Diabetes complications 0.143 2 1.67e-6 9.44e-6 ✓ sig.
Diabetes complications Diabetes microvascular complications 0.118 2 8.34e-6 4.17e-5 ✓ sig.
Choroidal neovascularization Diabetes microvascular complications 0.143 1 3.90e-4 8.66e-4 ✓ sig.
Choroidal neovascularization Diabetes complications 0.077 1 7.79e-4 1.40e-3 ✓ sig.
autoimmune lymphoproliferative syndrome type 1 Diabetic angiopathies 0.034 1 1.82e-3 2.68e-3 ✓ sig.
autoimmune lymphoproliferative syndrome type 1 Diabetic peripheral angiopathy 0.034 1 1.82e-3 2.68e-3 ✓ sig.
Dihydropteridine reductase deficiency Liver failure 0.019 1 3.38e-3 4.37e-3 ✓ sig.
autoimmune lymphoproliferative syndrome type 1 Liver failure 0.019 1 3.38e-3 4.37e-3 ✓ sig.