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.

← Back to all clusters

Cluster 211

8 diseases · 12 shared-gene connections
8 Diseases
74 Unique genes
0.095 Avg. similarity score
Congenital neutropenia Most-connected disease (6 links)
Log in to save this analysis

Save This Analysis

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 ⇵
Congenital neutropenia 6 6 17
Severe congenital neutropenia 5 5 22
Neutropenia 4 4 57
Neutrophilic leukemia 3 3 1
Congenital myelofibrosis with anemia 2 2 1
Neutropenia, nonimmune chronic idiopathic, adult 2 2 1
Thiopurine s-methyltransferase deficiency 1 1 1
immunodeficiency 76 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
CSF3R 4 / 8 Congenital neutropenia, Neutropenia, Neutrophilic leukemia, Severe congenital neutropenia
CLPB 3 / 8 Congenital neutropenia, Neutropenia, Severe congenital neutropenia
ELANE 3 / 8 Congenital neutropenia, Neutropenia, Severe congenital neutropenia
GFI1 3 / 8 Congenital neutropenia, Neutropenia, nonimmune chronic idiopathic, adult, Severe congenital neutropenia
JAGN1 3 / 8 Congenital neutropenia, Neutropenia, Severe congenital neutropenia
RBSN 3 / 8 Congenital myelofibrosis with anemia, Congenital neutropenia, Severe congenital neutropenia
SEC61A1 3 / 8 Congenital neutropenia, Neutropenia, Severe congenital neutropenia
SRP19 3 / 8 Congenital neutropenia, Neutropenia, Severe congenital neutropenia
SRP68 3 / 8 Congenital neutropenia, Neutropenia, Severe congenital neutropenia
FCHO1 2 / 8 Congenital neutropenia, immunodeficiency 76
G6PC3 2 / 8 Congenital neutropenia, Severe congenital neutropenia
HAX1 2 / 8 Congenital neutropenia, Severe congenital neutropenia
SMARCD2 2 / 8 Neutropenia, Severe congenital neutropenia
SRP54 2 / 8 Congenital neutropenia, Severe congenital neutropenia
TCIRG1 2 / 8 Congenital neutropenia, Severe congenital neutropenia
TPMT 2 / 8 Neutropenia, Thiopurine s-methyltransferase deficiency
VPS45 2 / 8 Congenital neutropenia, Severe congenital neutropenia
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 ⇵
Protein export
SRP19, SRP54, SEC61A1, SRP68, SRPRA
 KEGG 5 / 31 26.2× 1.16e-6 5.56e-5 ✓ sig.
Coronavirus disease - COVID-19
C5, CSF2, CSF3, FCGR2A, IFNA2, IL1B, RPS14, STAT2, TNF, CFD
 KEGG 10 / 238 6.8× 1.83e-6 8.15e-5 ✓ sig.
Malaria
ACKR1, CSF3, IL1B, TGFB2, TNF
 KEGG 5 / 50 16.2× 1.32e-5 4.23e-4 ✓ sig.
Cytokine-cytokine receptor interaction
CSF3R, CXCR2, CSF2, CSF3, IFNA2, IL1B, TGFB2, TNF, TNFRSF10A, TNFSF13B
 KEGG 10 / 298 5.4× 1.34e-5 4.29e-4 ✓ sig.
Rheumatoid arthritis
TCIRG1, CSF2, IL1B, TGFB2, TNF, TNFSF13B
 KEGG 6 / 95 10.3× 2.51e-5 7.19e-4 ✓ sig.
Tuberculosis
TCIRG1, FCGR2A, FCGR2B, IFNA2, IL1B, TGFB2, TNF
 KEGG 7 / 181 6.3× 1.21e-4 2.61e-3 ✓ sig.
Interleukin-10 signaling
CSF2, CSF3, IL1B, TNF
 Reactome 4 / 47 13.8× 1.94e-4 3.82e-3 ✓ sig.
Osteoclast differentiation
FCGR2A, FCGR2B, IL1B, STAT2, TGFB2, TNF
 KEGG 6 / 142 6.9× 2.35e-4 4.44e-3 ✓ sig.
Hypertrophic cardiomyopathy
LMNA, SGCZ, TGFB2, TNF, TPM1
 KEGG 5 / 99 8.2× 3.53e-4 6.09e-3 ✓ sig.
Hematopoietic cell lineage
CSF3R, CSF2, CSF3, IL1B, TNF
 KEGG 5 / 100 8.1× 3.70e-4 6.32e-3 ✓ sig.
Dilated cardiomyopathy
LMNA, SGCZ, TGFB2, TNF, TPM1
 KEGG 5 / 105 7.7× 4.63e-4 7.51e-3 ✓ sig.
Influenza A
IFNA2, IL1B, NUP98, STAT2, TNF, TNFRSF10A
 KEGG 6 / 173 5.6× 6.75e-4 1.01e-2 ✓ sig.
Antifolate resistance
IL1B, MTHFR, TNF
 KEGG 3 / 30 16.2× 8.09e-4 1.16e-2 ✓ sig.
Leishmaniasis
FCGR2A, IL1B, TGFB2, TNF
 KEGG 4 / 78 8.3× 1.34e-3 1.69e-2 ✓ sig.
Drug metabolism - other enzymes
DPYD, GSTT1, TPMT, UGT1A1
 KEGG 4 / 81 8.0× 1.54e-3 1.89e-2 ✓ 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 ⇵
SRP-dependent cotranslational protein targeting to membrane
SRP19, SRP54, SEC61A1, SRP68, SRPRA
 GO:0006614 5 / 10 126× 2.11e-10 5.58e-8 ✓ sig.
granulocyte differentiation
CLPB, SRP54, AP3B1, CSF3
 GO:0030851 4 / 15 67.3× 2.99e-7 3.04e-5 ✓ sig.
granulocyte colony-stimulating factor signaling pathway
JAGN1, CSF3, HAX1
 GO:0038158 3 / 5 152× 5.93e-7 5.40e-5 ✓ sig.
neutrophil chemotaxis
SRP54, CSF3R, CXCR2, IL1B, TGFB2
 GO:0030593 5 / 55 23.0× 2.53e-6 1.74e-4 ✓ sig.
defense response
CSF3R, ACKR1, FCGR2B, IFNA2, STAT2, TNF, WAS
 GO:0006952 7 / 163 10.8× 3.72e-6 2.37e-4 ✓ sig.
cotranslational protein targeting to membrane
SRP19, SEC61A1, SRPRA
 GO:0006613 3 / 10 75.8× 7.01e-6 3.93e-4 ✓ sig.
SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition
SRP19, SRP54, SRPRA
 GO:0006617 3 / 14 54.1× 2.10e-5 9.35e-4 ✓ sig.
protein targeting to ER
SRP54, SEC61A1, SRPRA
 GO:0045047 3 / 15 50.5× 2.62e-5 1.10e-3 ✓ sig.
response to hypoxia
ABCB1, CHRNB2, MTHFR, TGFB2, TGFBR3, TNF
 GO:0001666 6 / 176 8.6× 6.99e-5 2.32e-3 ✓ sig.
positive regulation of macrophage derived foam cell differentiation
CSF2, IL1B, TNF
 GO:0010744 3 / 21 36.1× 7.53e-5 2.45e-3 ✓ sig.
inflammatory response
TCIRG1, CXCR2, ACKR1, AP3B1, C5, FCGR2B, IFNA2, IL1B, TNF
 GO:0006954 9 / 467 4.9× 9.22e-5 2.84e-3 ✓ sig.
positive regulation of fever generation
IL1B, TNF
 GO:0031622 2 / 4 126× 9.23e-5 2.85e-3 ✓ sig.
cellular response to lipopolysaccharide
GFI1, ABCB1, CSF2, CSF3, IL1B, TNF
 GO:0071222 6 / 187 8.1× 9.76e-5 2.97e-3 ✓ sig.
cell morphogenesis
AP3B1, CDH13, PTPRO, SS18, TGFB2
 GO:0000902 5 / 119 10.6× 1.09e-4 3.23e-3 ✓ sig.
cardiac muscle cell proliferation
TGFB2, TGFBR3, GATA6
 GO:0060038 3 / 28 27.1× 1.82e-4 4.73e-3 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Congenital neutropenia Severe congenital neutropenia 0.538 14 4.52e-40 2.00e-38 ✓ sig.
Neutropenia Severe congenital neutropenia 0.111 8 6.49e-15 9.74e-14 ✓ sig.
Congenital neutropenia Neutropenia 0.103 7 1.23e-13 1.67e-12 ✓ sig.
Congenital myelofibrosis with anemia Congenital neutropenia 0.056 1 1.10e-3 1.81e-3 ✓ sig.
Congenital neutropenia Neutrophilic leukemia 0.056 1 1.10e-3 1.81e-3 ✓ sig.
Congenital neutropenia Neutropenia, nonimmune chronic idiopathic, adult 0.056 1 1.10e-3 1.81e-3 ✓ sig.
Congenital neutropenia immunodeficiency 76 0.056 1 1.10e-3 1.81e-3 ✓ sig.
Congenital myelofibrosis with anemia Severe congenital neutropenia 0.043 1 1.43e-3 2.21e-3 ✓ sig.
Neutropenia, nonimmune chronic idiopathic, adult Severe congenital neutropenia 0.043 1 1.43e-3 2.21e-3 ✓ sig.
Neutrophilic leukemia Severe congenital neutropenia 0.043 1 1.43e-3 2.21e-3 ✓ sig.
Neutropenia Neutrophilic leukemia 0.017 1 3.70e-3 4.73e-3 ✓ sig.
Neutropenia Thiopurine s-methyltransferase deficiency 0.017 1 3.70e-3 4.73e-3 ✓ sig.