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 63

14 diseases · 23 shared-gene connections
14 Diseases
299 Unique genes
0.098 Avg. similarity score
Liver failure Most-connected disease (7 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 ⇵
Liver failure 7 7 52
Brain ischemia 6 6 70
Diabetic angiopathies 5 5 28
Diabetic peripheral angiopathy 5 5 28
Necrosis 5 5 55
Status epilepticus 3 3 70
Transient ischemic attack 3 3 24
autoimmune lymphoproliferative syndrome type 1 3 3 1
Brain injuries 2 2 80
Cirrhosis 2 2 3
spinocerebellar ataxia, autosomal recessive 31 2 2 1
Developmental delay with overweight and facial dysmorphism 1 1 1
Dihydropteridine reductase deficiency 1 1 1
macrothrombocytopenia-lymphedema-developmental delay-facial dysmorphism-camptodactyly syndrome 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
IL1RN 8 / 14 Brain injuries, Brain ischemia, Diabetic angiopathies, Diabetic peripheral angiopathy and 4 more
TNF 7 / 14 Brain injuries, Brain ischemia, Diabetic angiopathies, Diabetic peripheral angiopathy and 3 more
SOD2 6 / 14 Brain injuries, Brain ischemia, Diabetic angiopathies, Diabetic peripheral angiopathy and 2 more
ALB 5 / 14 Brain injuries, Brain ischemia, Diabetic angiopathies, Diabetic peripheral angiopathy and 1 more
EPO 5 / 14 Brain injuries, Diabetic angiopathies, Diabetic peripheral angiopathy, Status epilepticus and 1 more
VEGFA 5 / 14 Brain injuries, Diabetic angiopathies, Diabetic peripheral angiopathy, Liver failure and 1 more
CASP3 4 / 14 Brain ischemia, Diabetic angiopathies, Diabetic peripheral angiopathy, Status epilepticus
CSF3 4 / 14 Brain injuries, Brain ischemia, Liver failure, Transient ischemic attack
FASLG 4 / 14 autoimmune lymphoproliferative syndrome type 1, Diabetic angiopathies, Diabetic peripheral angiopathy, Liver failure
MTHFR 4 / 14 Brain ischemia, Diabetic angiopathies, Diabetic peripheral angiopathy, Necrosis
NOS2 4 / 14 Brain injuries, Brain ischemia, Necrosis, Status epilepticus
RELA 4 / 14 Brain injuries, Brain ischemia, Diabetic angiopathies, Diabetic peripheral angiopathy
ASS1 3 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy, Liver failure
ATG7 3 / 14 Liver failure, Necrosis, spinocerebellar ataxia, autosomal recessive 31
BDNF 3 / 14 Brain injuries, Brain ischemia, Status epilepticus
CAT 3 / 14 Brain ischemia, Necrosis, Status epilepticus
CCL2 3 / 14 Brain injuries, Brain ischemia, Status epilepticus
HMOX1 3 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy, Status epilepticus
IL1B 3 / 14 Brain injuries, Brain ischemia, Necrosis
IL6 3 / 14 Brain injuries, Brain ischemia, Necrosis
JUN 3 / 14 Brain injuries, Brain ischemia, Status epilepticus
KRT18 3 / 14 Cirrhosis, Liver failure, Necrosis
PLAT 3 / 14 Brain ischemia, Diabetic angiopathies, Diabetic peripheral angiopathy
PTGS2 3 / 14 Brain injuries, Brain ischemia, Status epilepticus
SERPINF1 3 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy, Transient ischemic attack
SOD1 3 / 14 Brain ischemia, Necrosis, Transient ischemic attack
ADCY3 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
ADCY8 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
AGER 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
ASIC1 2 / 14 Brain injuries, Brain ischemia
BECN1 2 / 14 Brain injuries, Status epilepticus
CASP9 2 / 14 Brain ischemia, Transient ischemic attack
CAST 2 / 14 Liver failure, Necrosis
CCL3 2 / 14 Brain ischemia, Status epilepticus
CDC42 2 / 14 macrothrombocytopenia-lymphedema-developmental delay-facial dysmorphism-camptodactyly syndrome, Necrosis
CEBPB 2 / 14 Brain injuries, Brain ischemia
CREM 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
CXCL10 2 / 14 Brain injuries, Brain ischemia
CXCL12 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
CYCS 2 / 14 Brain ischemia, Transient ischemic attack
DMD 2 / 14 Necrosis, Status epilepticus
F2 2 / 14 Brain ischemia, Liver failure
FAS 2 / 14 Liver failure, Necrosis
FOS 2 / 14 Brain injuries, Status epilepticus
GCH1 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
HLA-DRB1 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
HP 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
ICAM1 2 / 14 Brain injuries, Brain ischemia
IGFBP1 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
IL17A 2 / 14 Brain ischemia, Necrosis
IL1A 2 / 14 Brain injuries, Brain ischemia
KRT8 2 / 14 Cirrhosis, Liver failure
MMP9 2 / 14 Brain injuries, Brain ischemia
MPO 2 / 14 Brain injuries, Brain ischemia
NOS3 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
PARP1 2 / 14 Brain injuries, Brain ischemia
POMC 2 / 14 Liver failure, Necrosis
PON1 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
QDPR 2 / 14 Dihydropteridine reductase deficiency, Liver failure
SERPINC1 2 / 14 Brain injuries, Liver failure
SERPINE1 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
SRRM2 2 / 14 Developmental delay with overweight and facial dysmorphism, Status epilepticus
THBS1 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
THBS2 2 / 14 Diabetic angiopathies, Diabetic peripheral angiopathy
TNFRSF1A 2 / 14 Brain injuries, Brain ischemia
UCP2 2 / 14 Brain injuries, Brain ischemia
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 ⇵
Lipid and atherosclerosis
CCL2, CD14, FOS, GSK3B, HSPA1A, IL1B, IL6, JUN, MMP9, PPP3CA, SOD2, TICAM2
 KEGG 49 / 216 9.1× 1.49e-33 5.88e-30 ✓ sig.
Cytokine-cytokine receptor interaction
CCL2, CSF3, CXCL10, EPO, IFNL3, IL10, IL12RB2, IL13RA2, IL18R1, IL1A, IL1B, IL1R1
 KEGG 52 / 298 7.0× 1.23e-29 3.57e-26 ✓ sig.
Interleukin-4 and Interleukin-13 signaling
CCL2, FGF2, FOS, IL10, IL13RA2, IL1A, IL1B, IL6, MMP9, PTGS2, TNF, VEGFA
 Reactome 29 / 108 10.8× 2.29e-22 2.81e-19 ✓ sig.
Apoptosis
FOS, JUN, PARP1, TNF, TNFRSF1A, TNFSF10, RELA, BBC3, CASP3, CASP9, CYCS, DIABLO
 KEGG 31 / 137 9.1× 2.05e-21 2.11e-18 ✓ sig.
Toxoplasmosis
HSPA1A, IL10, TLR2, TLR4, TNF, TNFRSF1A, ITGB1, LAMA1, NOS2, RELA, CASP3, CASP9
 KEGG 28 / 112 10.0× 1.05e-20 9.30e-18 ✓ sig.
Tuberculosis
CD14, CEBPB, CLEC4E, IL10, IL1A, IL1B, IL6, PPP3CA, TLR1, TLR2, TLR4, TLR9
 KEGG 34 / 181 7.5× 1.26e-20 1.09e-17 ✓ sig.
Chagas disease
CCL2, FOS, IL10, IL1B, IL2, IL6, JUN, TLR2, TLR4, TLR9, TNF, TNFRSF1A
 KEGG 27 / 103 10.5× 1.36e-20 1.17e-17 ✓ sig.
IL-17 signaling pathway
CCL2, CEBPB, CSF3, CXCL10, FOS, GSK3B, IL1B, IL6, JUN, MMP9, PTGS2, TNF
 KEGG 26 / 94 11.1× 1.60e-20 1.34e-17 ✓ sig.
Interleukin-10 signaling
CCL2, CSF3, CXCL10, IL10, IL1A, IL1B, IL1R1, IL1RN, IL6, PTGS2, TNF, TNFRSF1A
 Reactome 20 / 47 17.1× 2.37e-20 1.92e-17 ✓ sig.
Measles
FOS, GSK3B, HSPA1A, IL1A, IL1B, IL2, IL6, JUN, TLR2, TLR4, TLR9, RELA
 KEGG 30 / 139 8.7× 4.00e-20 3.11e-17 ✓ sig.
TNF signaling pathway
CCL2, CEBPB, CXCL10, FOS, IL18R1, IL1B, IL6, IRF1, JUN, MMP9, PTGS2, TNF
 KEGG 28 / 119 9.5× 6.24e-20 4.78e-17 ✓ sig.
Viral protein interaction with cytokine and cytokine receptor
CCL2, CXCL10, IL10, IL18R1, IL2, IL6, TNF, TNFRSF14, TNFRSF1A, TNFSF10, CCL11, CCL13
 KEGG 26 / 100 10.4× 9.03e-20 6.83e-17 ✓ sig.
Pathways in cancer
EPO, FGF2, FOS, GSK3B, IL12RB2, IL2, IL6, IL7, JUN, MMP9, PTGS2, TRAF4
 KEGG 54 / 533 4.1× 3.94e-19 2.82e-16 ✓ sig.
MAPK signaling pathway
BDNF, CD14, FGF2, FOS, HSPA1A, IL1A, IL1B, IL1R1, JUN, PPP3CA, TNF, TNFRSF1A
 KEGG 40 / 299 5.4× 1.57e-18 1.02e-15 ✓ sig.
Kaposi sarcoma-associated herpesvirus infection
BECN1, FGF2, FOS, GSK3B, IL6, JUN, PPP3CA, PTGS2, TNFRSF1A, VEGFA, ICAM1, RELA
 KEGG 33 / 196 6.8× 1.62e-18 1.05e-15 ✓ 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 ⇵
inflammatory response
CCL2, CD14, CEBPB, CXCL10, FOS, IL18R1, IL1A, IL1B, IL1R1, IL1RN, IL6, LY86
 GO:0006954 55 / 467 7.4× 7.79e-32 4.62e-28 ✓ sig.
response to lipopolysaccharide
CEBPB, CXCL10, EPO, FOS, IL10, IL12RB2, IL1B, MPO, SOD2, TLR4, TNF, NOS2
 GO:0032496 32 / 161 12.4× 5.96e-26 2.08e-22 ✓ sig.
immune response
CCL2, CEBPB, CLEC4E, CSF3, CXCL10, IL10, IL18R1, IL1A, IL1B, IL1R1, IL1RN, IL2
 GO:0006955 51 / 543 5.9× 7.33e-25 2.27e-21 ✓ sig.
negative regulation of apoptotic process
BECN1, EPO, GSK3B, HSPA1A, IL10, IL2, IL31RA, IL6, IL7, JUN, MMP9, MPO
 GO:0043066 48 / 524 5.7× 6.10e-23 1.48e-19 ✓ sig.
cellular response to lipopolysaccharide
CCL2, CD14, CEBPB, CSF3, CXCL10, IL10, IL1A, IL1B, IL6, MMP9, TICAM2, TLR4
 GO:0071222 31 / 187 10.4× 1.14e-22 2.68e-19 ✓ sig.
positive regulation of gene expression
CCL2, CEBPB, FGF2, GSK3B, HSPA1A, IL1A, IL1B, IL6, IL7, PPP3CA, TLR2, TLR4
 GO:0010628 46 / 504 5.7× 6.18e-22 1.29e-18 ✓ sig.
positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction
BECN1, CSF3, FGF2, GSK3B, IL1B, IL1R1, NOX4, TNF, VEGFA, ITGB1, ANGPT1, CAT
 GO:0051897 32 / 217 9.2× 9.37e-22 1.91e-18 ✓ sig.
positive regulation of chemokine production
IL1B, IL6, IL7, TLR2, TLR4, TLR9, TNF, EGR1, HIF1A, IL18, AGER, HMOX1
 GO:0032722 18 / 49 23.0× 2.09e-20 3.64e-17 ✓ sig.
positive regulation of MAPK cascade
CHRNA7, FGF2, IL1B, IL6, TLR9, TNF, VEGFA, NMNAT1, FGF1, IGF1, MAP2K1, SOD1
 GO:0043410 31 / 224 8.6× 2.87e-20 4.94e-17 ✓ sig.
positive regulation of ERK1 and ERK2 cascade
CHRNA7, EPO, FGF2, IL1B, JUN, NOX4, TLR4, TNF, VEGFA, ICAM1, ANGPT1, CCL3
 GO:0070374 29 / 201 9.0× 1.54e-19 2.34e-16 ✓ sig.
response to hypoxia
BECN1, CHRNA7, EPO, SOD2, TNF, UCP2, VEGFA, NOS2, CASP3, CASP9, CAT, EGR1
 GO:0001666 27 / 176 9.6× 5.68e-19 7.88e-16 ✓ sig.
apoptotic process
BECN1, CD14, EPO, IL1A, IL1B, IRF1, JUN, MMP9, PARP1, TLR2, TNFRSF1A, TNFSF10
 GO:0006915 51 / 747 4.3× 1.06e-18 1.42e-15 ✓ sig.
response to xenobiotic stimulus
BECN1, ENO2, FOS, GABRB3, GABRG3, IL10, JUN, SOD2, TNF, RELA, ADD3, CASP3
 GO:0009410 30 / 248 7.6× 5.76e-18 6.86e-15 ✓ sig.
positive regulation of interleukin-1 beta production
IL6, TLR4, TNF, RELA, CCL3, EGR1, IL17A, STAT3, AGER, ORM1, PANX1, APP
 GO:0032731 18 / 66 17.0× 9.71e-18 1.13e-14 ✓ sig.
positive regulation of inflammatory response
CEBPB, IL1B, IL2, TLR2, TLR4, TLR9, TNF, TNFRSF1A, CCL3, IL17RA, IL18, MDK
 GO:0050729 22 / 122 11.3× 3.20e-17 3.39e-14 ✓ 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 1.62e-86 ✓ sig.
Brain injuries Brain ischemia 0.180 23 1.33e-36 5.42e-35 ✓ sig.
Brain ischemia Necrosis 0.086 10 4.80e-14 6.74e-13 ✓ sig.
Brain injuries Status epilepticus 0.079 11 6.17e-14 8.59e-13 ✓ sig.
Brain ischemia Diabetic angiopathies 0.088 8 3.49e-13 4.65e-12 ✓ sig.
Brain ischemia Diabetic peripheral angiopathy 0.088 8 3.49e-13 4.65e-12 ✓ sig.
Brain ischemia Status epilepticus 0.076 10 6.18e-13 8.02e-12 ✓ sig.
Diabetic angiopathies Liver failure 0.080 6 3.92e-10 3.91e-9 ✓ sig.
Diabetic peripheral angiopathy Liver failure 0.080 6 3.92e-10 3.91e-9 ✓ sig.
Liver failure Necrosis 0.069 7 5.90e-10 5.77e-9 ✓ sig.
Brain ischemia Transient ischemic attack 0.067 6 8.95e-10 8.61e-9 ✓ sig.
Diabetic peripheral angiopathy Transient ischemic attack 0.082 4 9.06e-8 6.71e-7 ✓ sig.
Diabetic angiopathies Transient ischemic attack 0.082 4 9.06e-8 6.71e-7 ✓ sig.
Cirrhosis Liver failure 0.037 2 3.35e-5 1.64e-4 ✓ sig.
autoimmune lymphoproliferative syndrome type 1 Diabetic peripheral angiopathy 0.034 1 1.82e-3 2.66e-3 ✓ sig.
autoimmune lymphoproliferative syndrome type 1 Diabetic angiopathies 0.034 1 1.82e-3 2.66e-3 ✓ sig.
Dihydropteridine reductase deficiency Liver failure 0.019 1 3.38e-3 4.37e-3 ✓ sig.
Liver failure spinocerebellar ataxia, autosomal recessive 31 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.
macrothrombocytopenia-lymphedema-developmental delay-facial dysmorphism-camptodactyly syndrome Necrosis 0.018 1 3.57e-3 4.59e-3 ✓ sig.
Necrosis spinocerebellar ataxia, autosomal recessive 31 0.018 1 3.57e-3 4.59e-3 ✓ sig.
Developmental delay with overweight and facial dysmorphism Status epilepticus 0.014 1 4.55e-3 5.66e-3 ✓ sig.
Cirrhosis Necrosis 0.017 1 1.07e-2 1.21e-2 ✓ sig.