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 40

17 diseases · 44 shared-gene connections
17 Diseases
66 Unique genes
0.222 Avg. similarity score
Mesangiocapillary glomerulonephritis Most-connected disease (11 links)
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Disease Searched: Properdin deficiency 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 ⇵
Mesangiocapillary glomerulonephritis 11 11 8
Atypical hemolytic uremic syndrome 10 10 7
C3 glomerulonephritis 10 10 8
C3 glomerulopathy 9 9 8
Hemolytic uremic syndrome 8 8 33
Complement deficiencies 6 6 34
Membranoproliferative glomerulonephritis 6 6 3
Atypical hemolytic-uremic syndrome with B factor anomaly 5 5 1
Atypical hemolytic-uremic syndrome with DGKE deficiency 5 5 1
Complement factor b deficiency 5 5 1
Macular and posterior pole degeneration 4 4 13
Atypical hemolytic-uremic syndrome with anti-factor h antibodies 3 3 1
Factor i deficiency 2 2 2
Hemolytic uremic syndrome, atypical, 8, with rhizomelic short stature 1 1 1
Immunodeficiency due to ficolin 3 deficiency 1 1 1
Platelet-activating factor acetylhydrolase deficiency 1 1 1
Properdin deficiency 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
CFB 9 / 17 Atypical hemolytic uremic syndrome, Atypical hemolytic-uremic syndrome with B factor anomaly, C3 glomerulonephritis, C3 glomerulopathy and 5 more
CFH 8 / 17 Atypical hemolytic uremic syndrome, C3 glomerulonephritis, C3 glomerulopathy, Complement deficiencies and 4 more
CFI 8 / 17 Atypical hemolytic uremic syndrome, C3 glomerulonephritis, C3 glomerulopathy, Complement deficiencies and 4 more
C3 7 / 17 Atypical hemolytic uremic syndrome, C3 glomerulonephritis, C3 glomerulopathy, Complement deficiencies and 3 more
CFHR5 6 / 17 Atypical hemolytic-uremic syndrome with anti-factor h antibodies, C3 glomerulonephritis, C3 glomerulopathy, Complement deficiencies and 2 more
DGKE 6 / 17 Atypical hemolytic uremic syndrome, Atypical hemolytic-uremic syndrome with DGKE deficiency, C3 glomerulopathy, Hemolytic uremic syndrome and 2 more
CD46 5 / 17 Atypical hemolytic uremic syndrome, Complement deficiencies, Hemolytic uremic syndrome, Macular and posterior pole degeneration and 1 more
CFHR1 5 / 17 C3 glomerulonephritis, C3 glomerulopathy, Complement deficiencies, Hemolytic uremic syndrome and 1 more
CFHR2 3 / 17 C3 glomerulonephritis, C3 glomerulopathy, Complement deficiencies
CFHR3 3 / 17 C3 glomerulonephritis, Complement deficiencies, Hemolytic uremic syndrome
THBD 3 / 17 Atypical hemolytic uremic syndrome, Complement deficiencies, Hemolytic uremic syndrome
C1GALT1C1 2 / 17 Hemolytic uremic syndrome, Hemolytic uremic syndrome, atypical, 8, with rhizomelic short stature
C9 2 / 17 Complement deficiencies, Macular and posterior pole degeneration
CFHR4 2 / 17 Complement deficiencies, Hemolytic uremic syndrome
CFP 2 / 17 Complement deficiencies, Properdin deficiency
FCN3 2 / 17 Complement deficiencies, Immunodeficiency due to ficolin 3 deficiency
PLA2G7 2 / 17 Hemolytic uremic syndrome, Platelet-activating factor acetylhydrolase deficiency
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 ⇵
Regulation of Complement cascade
C3, CD46, CFB, CFH, CFHR1, CFHR3, CFHR5, CFI, CFHR4, CFHR2, C2, SERPING1
 Reactome 29 / 47 112× 8.74e-57 1.60e-52 ✓ sig.
Complement and coagulation cascades
C3, CD46, CFB, CFH, CFHR1, CFHR3, CFHR5, CFI, PLG, THBD, CFHR4, CFHR2
 KEGG 33 / 88 68.2× 2.26e-55 3.61e-51 ✓ sig.
Coronavirus disease - COVID-19
C3, CFB, C2, C4A, C4B, C5, C6, C8B, C7, C8A, C9, C1S
 KEGG 24 / 238 18.3× 1.25e-24 1.93e-21 ✓ sig.
Initial triggering of complement
C2, C4A, C4B, C1S, MBL2, C1QA, MASP2, C1QC, FCN3, C1R, C1QB
 Reactome 11 / 17 118× 6.93e-22 7.33e-19 ✓ sig.
Staphylococcus aureus infection
C3, CFB, CFH, CFI, PLG, C2, C4A, C4B, C5, C1S, CFD, MBL2
 KEGG 17 / 99 31.2× 1.62e-21 1.55e-18 ✓ sig.
Pertussis
C3, C2, SERPING1, C4A, C4B, C5, C1S, IL1A, IL1B, IL6, TNF, C1QA
 KEGG 15 / 78 35.0× 7.70e-20 5.57e-17 ✓ sig.
Systemic lupus erythematosus
C3, C2, C4A, C4B, C5, C6, C8B, C7, C8A, C9, C1S, TNF
 KEGG 17 / 140 22.1× 7.77e-19 4.81e-16 ✓ sig.
Activation of C3 and C5
C3, CFB, C2, C4A, C4B, C5, CFP
 Reactome 7 / 8 159× 8.69e-16 3.02e-13 ✓ sig.
Terminal pathway of complement
C5, C6, C8B, C7, C8A, C9, C8G
 Reactome 7 / 8 159× 8.69e-16 3.02e-13 ✓ sig.
Classical antibody-mediated complement activation
C1S, C1QA, C1QC, C1R, C1QB
 Reactome 5 / 6 152× 2.57e-11 3.57e-9 ✓ sig.
Prion disease
C5, C6, C8B, C7, C8A, C9, IL1A, IL1B, IL6, TNF, C1QA, C1QC
 KEGG 14 / 275 9.3× 2.09e-10 2.25e-8 ✓ sig.
Alcoholic liver disease
C3, C2, C4A, C4B, C5, IL1B, IL6, TNF, C1QA, C1QC, C1QB
 KEGG 11 / 144 13.9× 3.06e-10 3.21e-8 ✓ sig.
Alternative complement activation
C3, CFB, CFD, CFP
 Reactome 4 / 5 146× 4.14e-9 3.37e-7 ✓ sig.
Hematopoietic cell lineage
CD36, EPO, IL1A, IL1B, IL6, TNF, CD55, CD59
 KEGG 8 / 100 14.6× 6.71e-8 3.94e-6 ✓ sig.
Amoebiasis
COL4A5, C8B, C8A, C9, IL1B, IL6, TNF, C8G
 KEGG 8 / 103 14.1× 8.47e-8 4.82e-6 ✓ 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 ⇵
complement activation
C3, CFB, CFH, CFHR1, CFHR3, CFHR5, CFI, CFHR4, CFHR2, C2, C4A, C4B
 GO:0006956 29 / 35 235× 8.66e-69 5.49e-64 ✓ sig.
complement activation, classical pathway
C3, CD46, CFI, C2, C4A, C4B, C5, C6, C8B, C7, C8A, C9
 GO:0006958 21 / 37 161× 1.13e-43 1.49e-39 ✓ sig.
complement activation, alternative pathway
C3, CFB, CFH, CFHR5, C5, C8B, C7, C8A, C9, CFD, CFP, C8G
 GO:0006957 12 / 16 212× 2.35e-27 9.94e-24 ✓ sig.
complement activation, GZMK pathway
C3, C2, C4A, C4B, C5, C6, C8B, C7, C8A, C9, C8G
 GO:0160257 11 / 12 260× 5.30e-27 2.17e-23 ✓ sig.
innate immune response
C3, CD46, CFB, CFH, CFI, C2, C4A, C4B, C5, C6, C8B, C7
 GO:0045087 28 / 605 13.1× 1.13e-24 3.35e-21 ✓ sig.
killing of cells of another organism
C3, CFB, C2, C4A, C5, C6, C8B, C7, C8A, C9, C1S, MBL2
 GO:0031640 16 / 104 43.6× 1.73e-22 3.94e-19 ✓ sig.
activation of membrane attack complex
C3, CFB, C2, C4A, C1S, MBL2, MASP2, FCN3, C1R
 GO:0001905 9 / 13 196× 3.42e-20 5.64e-17 ✓ sig.
opsonization
C3, C2, C4A, C4B, C1S, MBL2, MASP2, FCN3, C1R
 GO:0008228 9 / 18 142× 2.30e-18 2.89e-15 ✓ sig.
immune system process
C3, CD46, CFB, CFH, CFI, C2, C4A, C4B, C5, C6, C8B, C7
 GO:0002376 26 / 943 7.8× 3.24e-17 3.44e-14 ✓ sig.
complement activation, lectin pathway
C3, C2, C4A, C5, MBL2, MASP2, FCN3
 GO:0001867 7 / 13 152× 8.33e-15 5.78e-12 ✓ sig.
zymogen activation
THBD, C1S, CFD, MBL2, MASP2, FCN3, C1R
 GO:0031638 7 / 32 61.9× 1.55e-11 5.68e-9 ✓ sig.
protein maturation
C3, CFB, C2, C4A, C1S, CFD, MBL2, MASP2, FCN3, C1R
 GO:0051604 10 / 134 21.1× 3.84e-11 1.29e-8 ✓ sig.
positive regulation of immune response
C6, C8B, C7, C8A, C9, CFP, C8G
 GO:0050778 7 / 40 49.5× 8.40e-11 2.61e-8 ✓ sig.
positive regulation of apoptotic cell clearance
C3, C2, C4A, C4B
 GO:2000427 4 / 6 189× 2.12e-9 4.46e-7 ✓ sig.
immune response
C3, C6, C8B, C7, C8A, C9, IL1A, IL1B, IL1RN, IL6, TNF, C1QC
 GO:0006955 14 / 543 7.3× 5.00e-9 9.61e-7 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
C3 glomerulopathy Mesangiocapillary glomerulonephritis 0.700 7 1.51e-24 2.55e-23 ✓ sig.
C3 glomerulonephritis C3 glomerulopathy 0.700 7 1.51e-24 2.55e-23 ✓ sig.
Hemolytic uremic syndrome Mesangiocapillary glomerulonephritis 0.235 8 1.69e-22 2.68e-21 ✓ sig.
C3 glomerulonephritis Complement deficiencies 0.229 8 2.21e-22 3.49e-21 ✓ sig.
Atypical hemolytic uremic syndrome Mesangiocapillary glomerulonephritis 0.600 6 1.02e-20 1.54e-19 ✓ sig.
C3 glomerulonephritis Mesangiocapillary glomerulonephritis 0.545 6 4.09e-20 6.02e-19 ✓ sig.
Complement deficiencies Hemolytic uremic syndrome 0.172 10 5.38e-20 7.88e-19 ✓ sig.
Atypical hemolytic uremic syndrome Hemolytic uremic syndrome 0.206 7 1.01e-19 1.46e-18 ✓ sig.
C3 glomerulopathy Hemolytic uremic syndrome 0.200 7 8.06e-19 1.13e-17 ✓ sig.
C3 glomerulonephritis Hemolytic uremic syndrome 0.200 7 8.06e-19 1.13e-17 ✓ sig.
C3 glomerulopathy Complement deficiencies 0.194 7 1.01e-18 1.42e-17 ✓ sig.
Complement deficiencies Mesangiocapillary glomerulonephritis 0.194 7 1.01e-18 1.42e-17 ✓ sig.
Atypical hemolytic uremic syndrome C3 glomerulopathy 0.455 5 1.58e-16 2.04e-15 ✓ sig.
Atypical hemolytic uremic syndrome C3 glomerulonephritis 0.333 4 1.02e-12 1.10e-11 ✓ sig.
Atypical hemolytic uremic syndrome Macular and posterior pole degeneration 0.235 4 1.04e-11 1.05e-10 ✓ sig.
Macular and posterior pole degeneration Mesangiocapillary glomerulonephritis 0.222 4 2.08e-11 2.06e-10 ✓ sig.
Atypical hemolytic uremic syndrome Membranoproliferative glomerulonephritis 0.375 3 5.65e-11 5.40e-10 ✓ sig.
Membranoproliferative glomerulonephritis Mesangiocapillary glomerulonephritis 0.333 3 9.05e-11 8.46e-10 ✓ sig.
C3 glomerulopathy Membranoproliferative glomerulonephritis 0.333 3 9.05e-11 8.46e-10 ✓ sig.
C3 glomerulopathy Macular and posterior pole degeneration 0.158 3 2.58e-8 1.93e-7 ✓ sig.
C3 glomerulonephritis Macular and posterior pole degeneration 0.158 3 2.58e-8 1.93e-7 ✓ sig.
Atypical hemolytic-uremic syndrome with B factor anomaly Complement factor b deficiency 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with DGKE deficiency Membranoproliferative glomerulonephritis 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with B factor anomaly Membranoproliferative glomerulonephritis 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Complement factor b deficiency Membranoproliferative glomerulonephritis 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Atypical hemolytic uremic syndrome Atypical hemolytic-uremic syndrome with DGKE deficiency 0.125 1 4.52e-4 8.26e-4 ✓ sig.
Atypical hemolytic uremic syndrome Complement factor b deficiency 0.125 1 4.52e-4 8.26e-4 ✓ sig.
Atypical hemolytic uremic syndrome Atypical hemolytic-uremic syndrome with B factor anomaly 0.125 1 4.52e-4 8.26e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with anti-factor h antibodies Mesangiocapillary glomerulonephritis 0.111 1 5.17e-4 9.13e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with DGKE deficiency Mesangiocapillary glomerulonephritis 0.111 1 5.17e-4 9.13e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with DGKE deficiency C3 glomerulopathy 0.111 1 5.17e-4 9.13e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with B factor anomaly Mesangiocapillary glomerulonephritis 0.111 1 5.17e-4 9.13e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with B factor anomaly C3 glomerulonephritis 0.111 1 5.17e-4 9.13e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with anti-factor h antibodies C3 glomerulopathy 0.111 1 5.17e-4 9.13e-4 ✓ sig.
Complement factor b deficiency Mesangiocapillary glomerulonephritis 0.111 1 5.17e-4 9.13e-4 ✓ sig.
C3 glomerulonephritis Complement factor b deficiency 0.111 1 5.17e-4 9.13e-4 ✓ sig.
Atypical hemolytic-uremic syndrome with anti-factor h antibodies C3 glomerulonephritis 0.111 1 5.17e-4 9.13e-4 ✓ sig.
Atypical hemolytic uremic syndrome Factor i deficiency 0.111 1 9.04e-4 1.41e-3 ✓ sig.
C3 glomerulonephritis Factor i deficiency 0.100 1 1.03e-3 1.57e-3 ✓ sig.
Hemolytic uremic syndrome Hemolytic uremic syndrome, atypical, 8, with rhizomelic short stature 0.029 1 2.13e-3 2.85e-3 ✓ sig.
Atypical hemolytic-uremic syndrome with DGKE deficiency Hemolytic uremic syndrome 0.029 1 2.13e-3 2.85e-3 ✓ sig.
Hemolytic uremic syndrome Platelet-activating factor acetylhydrolase deficiency 0.029 1 2.13e-3 2.85e-3 ✓ sig.
Complement deficiencies Immunodeficiency due to ficolin 3 deficiency 0.029 1 2.20e-3 2.92e-3 ✓ sig.
Complement deficiencies Properdin deficiency 0.029 1 2.20e-3 2.92e-3 ✓ sig.