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 55

15 diseases · 34 shared-gene connections
15 Diseases
171 Unique genes
0.112 Avg. similarity score
Thrombosis Most-connected disease (10 links)
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Disease Searched: Hemophilia a 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 ⇵
Thrombosis 10 10 45
Venous thrombosis 10 10 22
Thrombophilia 8 8 32
Disseminated intravascular coagulation 6 6 9
Thromboembolism 6 6 12
Blood coagulation disorder 4 4 24
Hemorrhage 4 4 24
Ischemic stroke 4 4 51
Hemophilia a 3 3 16
Spontaneous coronary artery dissection 3 3 1
Thrombomodulin-related bleeding disorder 3 3 1
Cerebral hemorrhage 2 2 29
Fetal erythroblastosis 2 2 2
MERTK-related retinopathy 2 2 1
hereditary thrombophilia due to congenital histidine-rich (poly-L) glycoprotein deficiency 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
F2 9 / 15 Blood coagulation disorder, Disseminated intravascular coagulation, Hemophilia a, Hemorrhage and 5 more
PLAT 8 / 15 Cerebral hemorrhage, Hemophilia a, Hemorrhage, Ischemic stroke and 4 more
PROC 7 / 15 Blood coagulation disorder, Disseminated intravascular coagulation, Ischemic stroke, Thromboembolism and 3 more
F5 6 / 15 Blood coagulation disorder, Ischemic stroke, Thromboembolism, Thrombophilia and 2 more
F7 6 / 15 Cerebral hemorrhage, Disseminated intravascular coagulation, Hemorrhage, Ischemic stroke and 2 more
PLAU 6 / 15 Cerebral hemorrhage, Hemorrhage, Ischemic stroke, Thromboembolism and 2 more
MTHFR 5 / 15 Blood coagulation disorder, Hemophilia a, Ischemic stroke, Thrombophilia and 1 more
SERPINC1 5 / 15 Blood coagulation disorder, Cerebral hemorrhage, Disseminated intravascular coagulation, Thrombosis and 1 more
THBD 5 / 15 Disseminated intravascular coagulation, Ischemic stroke, Thrombomodulin-related bleeding disorder, Thrombophilia and 1 more
F3 4 / 15 Disseminated intravascular coagulation, Spontaneous coronary artery dissection, Thrombosis, Venous thrombosis
HMOX1 4 / 15 Blood coagulation disorder, Cerebral hemorrhage, Hemophilia a, Thrombosis
PROS1 4 / 15 Ischemic stroke, Thromboembolism, Thrombophilia, Thrombosis
TFPI 4 / 15 Disseminated intravascular coagulation, Hemophilia a, Thrombophilia, Venous thrombosis
F13A1 3 / 15 Disseminated intravascular coagulation, Thrombophilia, Venous thrombosis
F8 3 / 15 Hemophilia a, Thrombophilia, Venous thrombosis
F9 3 / 15 Hemophilia a, Thrombophilia, Thrombosis
FCGR2A 3 / 15 Fetal erythroblastosis, Hemophilia a, Thrombosis
MERTK 3 / 15 MERTK-related retinopathy, Thromboembolism, Thrombosis
VKORC1 3 / 15 Blood coagulation disorder, Hemorrhage, Thrombosis
ABO 2 / 15 Blood coagulation disorder, Thrombophilia
ACE 2 / 15 Cerebral hemorrhage, Ischemic stroke
ATP1B1 2 / 15 Blood coagulation disorder, Thrombophilia
BDKRB2 2 / 15 Hemorrhage, Thrombosis
EPO 2 / 15 Thrombosis, Venous thrombosis
F10 2 / 15 Blood coagulation disorder, Thrombosis
FGA 2 / 15 Thrombophilia, Thrombosis
FGG 2 / 15 Blood coagulation disorder, Thrombophilia
GAS6 2 / 15 Thromboembolism, Thrombosis
HLA-DQA1 2 / 15 Hemophilia a, Thrombophilia
HRG 2 / 15 hereditary thrombophilia due to congenital histidine-rich (poly-L) glycoprotein deficiency, Thrombophilia
ITGB3 2 / 15 Cerebral hemorrhage, Hemorrhage
JAK2 2 / 15 Thromboembolism, Venous thrombosis
KDR 2 / 15 Cerebral hemorrhage, Venous thrombosis
LPA 2 / 15 Thromboembolism, Venous thrombosis
MMP2 2 / 15 Cerebral hemorrhage, Ischemic stroke
MMP9 2 / 15 Cerebral hemorrhage, Ischemic stroke
NME7 2 / 15 Blood coagulation disorder, Thrombophilia
P2RY12 2 / 15 Hemorrhage, Thrombosis
PLG 2 / 15 Thrombophilia, Venous thrombosis
PODXL 2 / 15 Hemorrhage, Thrombosis
POMC 2 / 15 Cerebral hemorrhage, Hemorrhage
SERPINA10 2 / 15 Thrombophilia, Venous thrombosis
SLC19A2 2 / 15 Blood coagulation disorder, Thrombophilia
TNF 2 / 15 Ischemic stroke, Thrombosis
VEGFA 2 / 15 Cerebral hemorrhage, Hemorrhage
VWF 2 / 15 Hemophilia a, Thrombosis
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 ⇵
Complement and coagulation cascades
F2, F5, FGG, PROC, F10, SERPINC1, F7, PLAT, PLAU, PROS1, SERPING1, THBD
 KEGG 29 / 88 23.1× 1.80e-32 5.41e-29 ✓ sig.
Common Pathway of Fibrin Clot Formation
F2, F5, FGG, PROC, F10, SERPINC1, PROS1, THBD, F13A1, F8, FGA, FGB
 Reactome 15 / 22 47.9× 1.68e-23 2.22e-20 ✓ sig.
Platelet degranulation
F5, FGG, ITGA2B, ITGB3, VEGFA, APP, PROS1, SERPING1, F13A1, F8, TGFB1, VWF
 Reactome 24 / 123 13.7× 5.87e-21 4.90e-18 ✓ sig.
Intrinsic Pathway of Fibrin Clot Formation
F2, PROC, F10, SERPINC1, PROS1, SERPING1, F8, F9, VWF, F12, F11, SERPIND1
 Reactome 14 / 23 42.8× 6.00e-21 4.98e-18 ✓ sig.
Interleukin-4 and Interleukin-13 signaling
HMOX1, BCL2, BCL2L1, MMP2, MMP3, MMP9, POMC, VEGFA, TNF, F13A1, IL10, TGFB1
 Reactome 17 / 108 11.1× 1.63e-13 3.98e-11 ✓ sig.
Regulation of Insulin-like Growth Factor (IGF) transport and uptake by Insulin-like Growth Factor Binding Proteins (IGFBPs)
F2, F5, FGG, PROC, SERPINC1, MMP2, SPP1, APP, APOA5, APOE, APOB, SERPINA1
 Reactome 17 / 125 9.6× 1.93e-12 3.95e-10 ✓ sig.
Gamma-carboxylation of protein precursors
F2, PROC, F10, GGCX, F7, PROS1, F9
 Reactome 7 / 9 54.6× 3.69e-12 7.17e-10 ✓ sig.
Transport of gamma-carboxylated protein precursors from the endoplasmic reticulum to the Golgi apparatus
F2, PROC, F10, F7, PROS1, F9, GAS6
 Reactome 7 / 9 54.6× 3.69e-12 7.17e-10 ✓ sig.
Removal of aminoterminal propeptides from gamma-carboxylated proteins
F2, PROC, F10, F7, PROS1, F9, GAS6
 Reactome 7 / 10 49.2× 1.21e-11 2.16e-9 ✓ sig.
Platelet activation
F2, FGG, GNAQ, ITGA2B, ITGB3, TBXAS1, FCGR2A, VWF, FERMT3, P2RY12, ADCY1, FGA
 KEGG 16 / 126 8.9× 2.59e-11 4.30e-9 ✓ sig.
Pathways in cancer
F2, GNAQ, HMOX1, BAX, BCL2, BCL2L1, CASP3, CASP8, COL4A1, COL4A2, ITGA2B, ITGAV
 KEGG 30 / 533 4.0× 8.25e-11 1.22e-8 ✓ sig.
AGE-RAGE signaling pathway in diabetic complications
BAX, BCL2, CASP3, COL4A1, COL4A2, MMP2, VEGFA, THBD, TNF, F3, TGFB1, JAK2
 KEGG 14 / 101 9.7× 1.44e-10 2.04e-8 ✓ sig.
Post-translational protein phosphorylation
F5, FGG, PROC, SERPINC1, SPP1, APP, APOA5, APOE, APOB, SERPINA1, GAS6, FGA
 Reactome 14 / 108 9.1× 3.61e-10 4.68e-8 ✓ sig.
Extrinsic Pathway of Fibrin Clot Formation
F10, F7, F3, TFPI, F9
 Reactome 5 / 5 70.2× 5.52e-10 6.88e-8 ✓ sig.
Efferocytosis
CASP3, ITGAV, ITGB3, NR1H3, PROS1, IL10, TGFB1, P2RY12, GAS6, JAK2, MERTK, EPO
 KEGG 16 / 157 7.2× 7.32e-10 8.83e-8 ✓ 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 ⇵
blood coagulation
F2, F5, FGG, PROC, F10, GGCX, GNAQ, SERPINC1, VKORC1, F7, ITGB3, PLAT
 GO:0007596 38 / 106 39.2× 2.29e-51 5.78e-47 ✓ sig.
hemostasis
F2, F5, FGG, PROC, F10, SERPINC1, F7, PLAU, PROS1, SERPING1, THBD, F3
 GO:0007599 31 / 55 61.6× 7.54e-50 1.67e-45 ✓ sig.
fibrinolysis
F2, FGG, PLAT, PLAU, PROS1, SERPING1, F12, FGA, FGB, PLG, HRG, GP1BA
 GO:0042730 14 / 19 80.5× 1.88e-25 6.26e-22 ✓ sig.
positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction
F2, FLT1, KDR, VEGFA, APP, NTRK2, PARK7, PROS1, TNF, TGFB1, P2RY12, GAS6
 GO:0051897 20 / 217 10.1× 1.04e-14 6.92e-12 ✓ sig.
platelet activation
F2, FGG, ITGB3, VWF, P2RY12, MERTK, FGA, FGB, HRG, GP1BA, P2RY1, PF4
 GO:0030168 13 / 69 20.6× 4.93e-14 2.88e-11 ✓ sig.
plasminogen activation
FGG, PLAT, PLAU, F11, FGA, FGB, KLKB1
 GO:0031639 7 / 12 63.7× 3.62e-12 1.50e-9 ✓ sig.
negative regulation of fibrinolysis
F2, PLAT, PLAU, THBD, PLG, HRG, SERPINE1
 GO:0051918 7 / 12 63.7× 3.62e-12 1.50e-9 ✓ sig.
blood coagulation, fibrin clot formation
FGG, ITGB3, F13A1, FGA, FGB, F13B
 GO:0072378 6 / 9 72.9× 4.42e-11 1.40e-8 ✓ sig.
negative regulation of blood coagulation
F2, PROC, APOE, THBD, TFPI, PF4, SERPINE1
 GO:0030195 7 / 16 47.8× 5.07e-11 1.59e-8 ✓ sig.
negative regulation of endothelial cell apoptotic process
FGG, ITGB3, KDR, IL10, IL11, GAS6, FGA, FGB, SERPINE1
 GO:2000352 9 / 39 25.2× 6.10e-11 1.88e-8 ✓ sig.
proteolysis
ADAMTS17, F2, PROC, F10, ACE, CASP3, CASP8, F7, MMP2, MMP3, MMP9, PLAT
 GO:0006508 26 / 613 4.6× 6.81e-11 2.07e-8 ✓ sig.
positive regulation of ERK1 and ERK2 cascade
FGG, ITGB3, KDR, VEGFA, APP, APOE, HLA-DRB1, NPY, TNF, TGFB1, GAS6, FGA
 GO:0070374 15 / 201 8.2× 5.16e-10 1.26e-7 ✓ sig.
response to hypoxia
ATP1B1, MTHFR, CASP3, F7, HMOX2, MMP2, PLAT, PLAU, VEGFA, LTA, TNF, TGFB1
 GO:0001666 14 / 176 8.7× 8.64e-10 1.98e-7 ✓ sig.
angiogenesis
HMOX1, APOLD1, CASP8, COL4A1, COL4A2, FLT1, ITGA2B, ITGAV, ITGB3, KDR, MMP2, VEGFA
 GO:0001525 17 / 284 6.5× 1.06e-9 2.36e-7 ✓ sig.
positive regulation of cell migration
F10, CASP8, F7, FLT1, ITGAV, ITGB3, KDR, MMP2, PLAU, VEGFA, F3, TGFB1
 GO:0030335 17 / 292 6.4× 1.61e-9 3.45e-7 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Thrombophilia Venous thrombosis 0.222 10 1.99e-22 4.21e-21 ✓ sig.
Thromboembolism Venous thrombosis 0.296 8 2.02e-21 4.06e-20 ✓ sig.
Disseminated intravascular coagulation Venous thrombosis 0.280 7 1.51e-19 2.79e-18 ✓ sig.
Blood coagulation disorder Thrombophilia 0.188 9 2.69e-19 4.90e-18 ✓ sig.
Thromboembolism Thrombosis 0.160 8 1.35e-18 2.40e-17 ✓ sig.
Thrombosis Venous thrombosis 0.133 8 8.55e-16 1.28e-14 ✓ sig.
Hemophilia a Thrombophilia 0.167 7 9.35e-16 1.40e-14 ✓ sig.
Ischemic stroke Thromboembolism 0.123 7 2.23e-15 3.25e-14 ✓ sig.
Thrombophilia Thrombosis 0.114 8 2.75e-14 3.73e-13 ✓ sig.
Hemorrhage Thrombosis 0.111 7 3.72e-13 4.67e-12 ✓ sig.
Blood coagulation disorder Thrombosis 0.111 7 3.72e-13 4.67e-12 ✓ sig.
Ischemic stroke Venous thrombosis 0.104 7 4.68e-13 5.83e-12 ✓ sig.
Ischemic stroke Thrombosis 0.090 8 1.60e-12 1.90e-11 ✓ sig.
Cerebral hemorrhage Hemorrhage 0.125 6 3.38e-12 3.85e-11 ✓ sig.
Disseminated intravascular coagulation Thrombophilia 0.135 5 3.50e-12 3.98e-11 ✓ sig.
Ischemic stroke Thrombophilia 0.091 7 9.00e-12 9.92e-11 ✓ sig.
Hemophilia a Venous thrombosis 0.147 5 1.58e-11 1.71e-10 ✓ sig.
Blood coagulation disorder Venous thrombosis 0.119 5 1.53e-10 1.49e-9 ✓ sig.
Cerebral hemorrhage Venous thrombosis 0.106 5 4.24e-10 3.99e-9 ✓ sig.
Hemorrhage Thromboembolism 0.121 4 2.23e-9 1.94e-8 ✓ sig.
Disseminated intravascular coagulation Thromboembolism 0.158 3 3.03e-8 2.29e-7 ✓ sig.
Hemorrhage Venous thrombosis 0.093 4 3.26e-8 2.46e-7 ✓ sig.
Blood coagulation disorder Disseminated intravascular coagulation 0.097 3 2.78e-7 1.81e-6 ✓ sig.
Disseminated intravascular coagulation Thrombomodulin-related bleeding disorder 0.100 1 5.84e-4 1.16e-3 ✓ sig.
Disseminated intravascular coagulation Spontaneous coronary artery dissection 0.100 1 5.84e-4 1.16e-3 ✓ sig.
MERTK-related retinopathy Thromboembolism 0.077 1 7.79e-4 1.41e-3 ✓ sig.
Spontaneous coronary artery dissection Venous thrombosis 0.043 1 1.43e-3 2.23e-3 ✓ sig.
Fetal erythroblastosis Hemophilia a 0.056 1 2.08e-3 2.97e-3 ✓ sig.
Thrombomodulin-related bleeding disorder Thrombophilia 0.030 1 2.08e-3 2.97e-3 ✓ sig.
hereditary thrombophilia due to congenital histidine-rich (poly-L) glycoprotein deficiency Thrombophilia 0.030 1 2.08e-3 2.97e-3 ✓ sig.
Spontaneous coronary artery dissection Thrombosis 0.022 1 2.92e-3 3.88e-3 ✓ sig.
MERTK-related retinopathy Thrombosis 0.022 1 2.92e-3 3.88e-3 ✓ sig.
Thrombomodulin-related bleeding disorder Thrombosis 0.022 1 2.92e-3 3.88e-3 ✓ sig.
Fetal erythroblastosis Thrombosis 0.021 1 5.84e-3 7.05e-3 ✓ sig.