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 393

7 diseases · 14 shared-gene connections
7 Diseases
36 Unique genes
0.336 Avg. similarity score
Chloracne Most-connected disease (5 links)
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Disease Searched: Rapid progression to aids from hiv1 infection 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 ⇵
Chloracne 5 5 33
Hemoglobin m disease 5 5 3
Thalassemia 5 5 5
Unstable hemoglobin disease 5 5 3
Methemoglobinemia 4 4 6
Heinz body anemias 3 3 2
Rapid progression to aids from hiv1 infection 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
HBA2 6 / 7 Chloracne, Heinz body anemias, Hemoglobin m disease, Methemoglobinemia and 2 more
HBB 6 / 7 Chloracne, Heinz body anemias, Hemoglobin m disease, Methemoglobinemia and 2 more
HBA1 5 / 7 Chloracne, Hemoglobin m disease, Methemoglobinemia, Thalassemia and 1 more
CX3CR1 2 / 7 Chloracne, Rapid progression to aids from hiv1 infection
GSTM1 2 / 7 Chloracne, Thalassemia
HBD 2 / 7 Chloracne, Thalassemia
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 ⇵
Erythrocytes take up oxygen and release carbon dioxide
HBA1, HBA2, HBB
 Reactome 3 / 9 111× 2.05e-6 6.89e-5 ✓ sig.
Scavenging of heme from plasma
HBA1, HBA2, HBB
 Reactome 3 / 13 77.0× 6.93e-6 1.91e-4 ✓ sig.
Erythrocytes take up carbon dioxide and release oxygen
HBA1, HBA2, HBB
 Reactome 3 / 13 77.0× 6.93e-6 1.91e-4 ✓ sig.
Malaria
HBA1, HBA2, HBB, ITGB2
 KEGG 4 / 50 26.7× 1.42e-5 3.47e-4 ✓ sig.
Hepatocellular carcinoma
CDK6, EGFR, GADD45A, GSTM1, GSTM3
 KEGG 5 / 170 9.8× 1.42e-4 2.27e-3 ✓ sig.
Pathways in cancer
CDK6, CDKN1B, CYCS, EGFR, GADD45A, GSTM1, GSTM3, PTGER4
 KEGG 8 / 533 5.0× 1.44e-4 2.30e-3 ✓ sig.
Small cell lung cancer
CDK6, CDKN1B, CYCS, GADD45A
 KEGG 4 / 93 14.3× 1.64e-4 2.56e-3 ✓ sig.
African trypanosomiasis
HBA1, HBA2, HBB
 KEGG 3 / 37 27.0× 1.79e-4 2.74e-3 ✓ sig.
Vitamin C (ascorbate) metabolism
CYB5A, CYB5R3
 Reactome 2 / 8 83.4× 2.42e-4 3.49e-3 ✓ sig.
Measles
CD28, CDK6, CDKN1B, CYCS
 KEGG 4 / 139 9.6× 7.59e-4 8.54e-3 ✓ sig.
Chemical carcinogenesis - DNA adducts
GSTM1, GSTM3, CYP1A2
 KEGG 3 / 70 14.3× 1.18e-3 1.20e-2 ✓ sig.
Viral myocarditis
CD28, CYCS, ITGB2
 KEGG 3 / 70 14.3× 1.18e-3 1.20e-2 ✓ sig.
Drug metabolism - cytochrome P450
GSTM1, GSTM3, CYP1A2
 KEGG 3 / 73 13.7× 1.33e-3 1.31e-2 ✓ sig.
Melanoma
CDK6, EGFR, GADD45A
 KEGG 3 / 73 13.7× 1.33e-3 1.31e-2 ✓ sig.
Non-small cell lung cancer
CDK6, EGFR, GADD45A
 KEGG 3 / 73 13.7× 1.33e-3 1.31e-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 ⇵
carbon dioxide transport
HBA1, HBA2, HBB, HBD, HBG1
 GO:0015670 5 / 13 200× 2.53e-11 8.18e-9 ✓ sig.
oxygen transport
HBA1, HBA2, HBB, HBD, HBG1
 GO:0015671 5 / 17 153× 1.21e-10 3.37e-8 ✓ sig.
erythrocyte development
HBA1, HBA2, HBB, HBD, HBG1
 GO:0048821 5 / 32 81.1× 3.85e-9 7.12e-7 ✓ sig.
nitric oxide transport
HBA1, HBA2, HBB
 GO:0030185 3 / 5 311× 6.55e-8 8.30e-6 ✓ sig.
hydrogen peroxide catabolic process
HBA1, HBA2, HBB
 GO:0042744 3 / 21 74.2× 8.53e-6 4.48e-4 ✓ sig.
xenobiotic catabolic process
GSTM1, GSTM3, CYP1A2
 GO:0042178 3 / 28 55.6× 2.08e-5 8.94e-4 ✓ sig.
nitrobenzene metabolic process
GSTM1, GSTM3
 GO:0018916 2 / 4 260× 2.16e-5 9.21e-4 ✓ sig.
cellular detoxification of nitrogen compound
GSTM1, GSTM3
 GO:0070458 2 / 5 208× 3.60e-5 1.35e-3 ✓ sig.
regulation of peptidyl-tyrosine phosphorylation
EGFR, ITGB2
 GO:0050730 2 / 6 173× 5.39e-5 1.83e-3 ✓ sig.
response to hydrogen peroxide
HBA1, HBA2, HBB
 GO:0042542 3 / 39 39.9× 5.72e-5 1.91e-3 ✓ sig.
regulation of hematopoietic stem cell differentiation
CDK6, OSM
 GO:1902036 2 / 11 94.4× 1.96e-4 4.74e-3 ✓ sig.
negative regulation of epithelial cell proliferation
CDK6, CDKN1B, EPPK1
 GO:0050680 3 / 62 25.1× 2.30e-4 5.30e-3 ✓ sig.
inflammatory response
CX3CR1, HBA1, HBA2, HBB, ITGB2, PTGER4
 GO:0006954 6 / 467 6.7× 2.43e-4 5.52e-3 ✓ sig.
cellular oxidant detoxification
HBA1, HBA2, HBB
 GO:0098869 3 / 66 23.6× 2.76e-4 6.05e-3 ✓ sig.
positive regulation of nuclear-transcribed mRNA poly(A) tail shortening
BTG2, TOB1
 GO:0060213 2 / 13 79.9× 2.78e-4 6.07e-3 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Chloracne Thalassemia 0.147 5 3.20e-14 3.73e-13 ✓ sig.
Hemoglobin m disease Unstable hemoglobin disease 0.750 3 1.62e-12 1.71e-11 ✓ sig.
Hemoglobin m disease Thalassemia 0.500 3 1.62e-11 1.61e-10 ✓ sig.
Thalassemia Unstable hemoglobin disease 0.500 3 1.62e-11 1.61e-10 ✓ sig.
Hemoglobin m disease Methemoglobinemia 0.429 3 3.23e-11 3.15e-10 ✓ sig.
Methemoglobinemia Unstable hemoglobin disease 0.429 3 3.23e-11 3.15e-10 ✓ sig.
Methemoglobinemia Thalassemia 0.333 3 3.23e-10 2.90e-9 ✓ sig.
Chloracne Hemoglobin m disease 0.088 3 8.81e-9 6.96e-8 ✓ sig.
Chloracne Unstable hemoglobin disease 0.088 3 8.81e-9 6.96e-8 ✓ sig.
Heinz body anemias Hemoglobin m disease 0.500 2 2.50e-8 1.87e-7 ✓ sig.
Heinz body anemias Unstable hemoglobin disease 0.500 2 2.50e-8 1.87e-7 ✓ sig.
Heinz body anemias Thalassemia 0.333 2 8.34e-8 5.85e-7 ✓ sig.
Chloracne Methemoglobinemia 0.081 3 1.75e-7 1.18e-6 ✓ sig.
Chloracne Rapid progression to aids from hiv1 infection 0.029 1 2.13e-3 2.85e-3 ✓ sig.