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 162

9 diseases · 13 shared-gene connections
9 Diseases
126 Unique genes
0.107 Avg. similarity score
Seborrheic dermatitis Most-connected disease (6 links)
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Disease Searched: intellectual developmental disorder 59 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 ⇵
Seborrheic dermatitis 6 6 37
Erythematosquamous dermatosis 4 4 22
Sebaceous gland disease 4 4 14
Psoriasis vulgaris 3 3 54
Uveal melanoma 3 3 40
nephrotic syndrome 14 2 2 1
netherton syndrome 2 2 1
Ichthyosis vulgaris 1 1 1
intellectual developmental disorder 59 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
HERC2 4 / 9 Erythematosquamous dermatosis, Sebaceous gland disease, Seborrheic dermatitis, Uveal melanoma
IRF4 4 / 9 Erythematosquamous dermatosis, Sebaceous gland disease, Seborrheic dermatitis, Uveal melanoma
CARD14 3 / 9 Erythematosquamous dermatosis, Psoriasis vulgaris, Seborrheic dermatitis
FAM8A1 3 / 9 Erythematosquamous dermatosis, Psoriasis vulgaris, Seborrheic dermatitis
IL23R 3 / 9 Erythematosquamous dermatosis, Psoriasis vulgaris, Seborrheic dermatitis
IL2RA 3 / 9 Erythematosquamous dermatosis, Psoriasis vulgaris, Seborrheic dermatitis
MC1R 3 / 9 Erythematosquamous dermatosis, Sebaceous gland disease, Seborrheic dermatitis
POLI 3 / 9 Erythematosquamous dermatosis, Psoriasis vulgaris, Seborrheic dermatitis
RALY 3 / 9 Erythematosquamous dermatosis, Sebaceous gland disease, Seborrheic dermatitis
SGPL1 3 / 9 nephrotic syndrome 14, Seborrheic dermatitis, Uveal melanoma
SLC45A2 3 / 9 Erythematosquamous dermatosis, Sebaceous gland disease, Seborrheic dermatitis
SPINK5 3 / 9 Erythematosquamous dermatosis, netherton syndrome, Seborrheic dermatitis
TYK2 3 / 9 Erythematosquamous dermatosis, Psoriasis vulgaris, Seborrheic dermatitis
TYR 3 / 9 Erythematosquamous dermatosis, Sebaceous gland disease, Seborrheic dermatitis
ZMIZ1 3 / 9 Erythematosquamous dermatosis, Psoriasis vulgaris, Seborrheic dermatitis
CAMK2G 2 / 9 intellectual developmental disorder 59, Psoriasis vulgaris
CLPTM1L 2 / 9 Sebaceous gland disease, Uveal melanoma
FLG 2 / 9 Ichthyosis vulgaris, Sebaceous gland disease
FLYWCH2 2 / 9 Erythematosquamous dermatosis, Seborrheic dermatitis
FOXP1 2 / 9 Erythematosquamous dermatosis, Seborrheic dermatitis
IL13 2 / 9 Erythematosquamous dermatosis, Psoriasis vulgaris
IRF1 2 / 9 Psoriasis vulgaris, Seborrheic dermatitis
KLK6 2 / 9 Erythematosquamous dermatosis, Seborrheic dermatitis
KLK7 2 / 9 Erythematosquamous dermatosis, Seborrheic dermatitis
PRSS22 2 / 9 Erythematosquamous dermatosis, Seborrheic dermatitis
TAP2 2 / 9 Erythematosquamous dermatosis, Seborrheic dermatitis
UNC5B 2 / 9 Seborrheic dermatitis, Uveal melanoma
ZBTB7A 2 / 9 Erythematosquamous dermatosis, Seborrheic dermatitis
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 ⇵
Interferon alpha/beta signaling
IRF4, TYK2, HLA-B, HLA-C, IRF1, SOCS1, STAT2
 Reactome 7 / 67 10.0× 6.10e-6 2.15e-4 ✓ sig.
Melanin biosynthesis
SLC45A2, TYR, OCA2
 Reactome 3 / 5 57.2× 1.11e-5 3.55e-4 ✓ sig.
Interferon gamma signaling
IRF4, CAMK2G, HLA-B, HLA-C, IRF1, SOCS1, TRIM29
 Reactome 7 / 87 7.7× 3.45e-5 9.17e-4 ✓ sig.
Antigen Presentation: Folding, assembly and peptide loading of class I MHC
TAP2, ERAP1, HLA-B, HLA-C
 Reactome 4 / 25 15.3× 1.23e-4 2.58e-3 ✓ sig.
Interleukin-4 and Interleukin-13 signaling
IL13, IL23R, IRF4, TYK2, NOS2, SOCS1, TP53
 Reactome 7 / 108 6.2× 1.37e-4 2.82e-3 ✓ sig.
Cholinergic synapse
CAMK2G, FYN, GNA11, GNAQ, GNB5, KCNJ3, PLCB4
 KEGG 7 / 115 5.8× 2.03e-4 3.85e-3 ✓ sig.
ER-Phagosome pathway
TAP2, HLA-B, HLA-C, TLR2
 Reactome 4 / 30 12.7× 2.56e-4 4.64e-3 ✓ sig.
Epstein-Barr virus infection
TAP2, TYK2, HLA-B, HLA-C, RUNX3, STAT2, TNFAIP3, TP53, TLR2
 KEGG 9 / 204 4.2× 2.93e-4 5.15e-3 ✓ sig.
JAK-STAT signaling pathway
IL13, IL23R, IL2RA, TYK2, IFNLR1, PTPN2, SOCS1, STAT2
 KEGG 8 / 168 4.5× 3.85e-4 6.43e-3 ✓ sig.
Measles
IL2RA, TYK2, IFIH1, STAT2, TNFAIP3, TP53, TLR2
 KEGG 7 / 139 4.8× 6.43e-4 9.58e-3 ✓ sig.
Ovarian tumor domain proteases
IFIH1, TNFAIP3, TNIP1, TP53
 Reactome 4 / 38 10.0× 6.47e-4 9.64e-3 ✓ sig.
Herpes simplex virus 1 infection
TAP2, TYK2, HLA-B, HLA-C, IFIH1, STAT2, TP53, TLR2
 KEGG 8 / 182 4.2× 6.54e-4 9.71e-3 ✓ sig.
TP53 Regulates Transcription of Genes Involved in Cytochrome C Release
TP63, TP53, PRELID3A
 Reactome 3 / 20 14.3× 1.13e-3 1.47e-2 ✓ sig.
Thromboxane signalling through TP receptor
GNA11, GNAQ, GNB5
 Reactome 3 / 24 11.9× 1.94e-3 2.23e-2 ✓ sig.
ADP signalling through P2Y purinoceptor 1
GNA11, GNAQ, GNB5
 Reactome 3 / 25 11.4× 2.19e-3 2.44e-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 ⇵
melanin biosynthetic process from tyrosine
SLC45A2, TYR, OCA2
 GO:0006583 3 / 4 111× 1.19e-6 9.60e-5 ✓ sig.
melanin biosynthetic process
MC1R, SLC45A2, TYR, OCA2
 GO:0042438 4 / 14 42.4× 1.87e-6 1.38e-4 ✓ sig.
positive regulation of T cell mediated cytotoxicity
IL23R, TAP2, HLA-B, HLA-C
 GO:0001916 4 / 34 17.4× 7.81e-5 2.52e-3 ✓ sig.
developmental pigmentation
SLC45A2, GNA11, OCA2
 GO:0048066 3 / 14 31.8× 1.03e-4 3.10e-3 ✓ sig.
epidermis development
KLK7, GRHL3, LCE3A, LCE3B, PLOD1, TP63
 GO:0008544 6 / 114 7.8× 1.23e-4 3.53e-3 ✓ sig.
type II interferon-mediated signaling pathway
TYK2, IRF1, TP53
 GO:0060333 3 / 15 29.7× 1.28e-4 3.66e-3 ✓ sig.
negative regulation of macrophage colony-stimulating factor signaling pathway
PTPN2, STAP1
 GO:1902227 2 / 3 98.9× 1.35e-4 3.79e-3 ✓ sig.
antigen processing and presentation of peptide antigen via MHC class I
ERAP1, HLA-B, HLA-C
 GO:0002474 3 / 17 26.2× 1.90e-4 4.89e-3 ✓ sig.
regulation of interleukin-12 production
FOXP1, HLA-B
 GO:0032655 2 / 4 74.2× 2.68e-4 6.23e-3 ✓ sig.
inflammatory response
IL13, IL23R, IL2RA, NOS2, PRDX5, TNFAIP3, TNIP1, TRAF3IP2, TACR1, TLR2, TMEM258
 GO:0006954 11 / 467 3.5× 3.25e-4 7.15e-3 ✓ sig.
intracellular signal transduction
MC1R, TYK2, FYN, PLCL2, SOCS1, TRAF3IP2, PLCD1, MAST4, CORO2A, DEPDC4, PLCB4
 GO:0035556 11 / 471 3.5× 3.49e-4 7.50e-3 ✓ sig.
macrophage activation
FOXP1, IL13, JMJD6
 GO:0042116 3 / 23 19.3× 4.80e-4 9.41e-3 ✓ sig.
lysosomal lumen pH elevation
SLC45A2, OCA2
 GO:0035752 2 / 6 49.4× 6.65e-4 1.17e-2 ✓ sig.
interleukin-23-mediated signaling pathway
IL23R, TYK2
 GO:0038155 2 / 6 49.4× 6.65e-4 1.17e-2 ✓ sig.
positive regulation of T cell proliferation
IL23R, IL2RA, TYK2, CCDC88B
 GO:0042102 4 / 67 8.9× 1.09e-3 1.60e-2 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Erythematosquamous dermatosis Seborrheic dermatitis 0.538 21 1.70e-57 1.00e-55 ✓ sig.
Erythematosquamous dermatosis Psoriasis vulgaris 0.116 8 4.10e-15 5.88e-14 ✓ sig.
Erythematosquamous dermatosis Sebaceous gland disease 0.194 6 1.20e-14 1.68e-13 ✓ sig.
Sebaceous gland disease Seborrheic dermatitis 0.130 6 3.72e-13 4.67e-12 ✓ sig.
Psoriasis vulgaris Seborrheic dermatitis 0.095 8 4.75e-13 5.92e-12 ✓ sig.
Seborrheic dermatitis Uveal melanoma 0.054 4 2.42e-6 1.33e-5 ✓ sig.
Sebaceous gland disease Uveal melanoma 0.058 3 5.80e-6 2.98e-5 ✓ sig.
Ichthyosis vulgaris Sebaceous gland disease 0.067 1 9.09e-4 1.58e-3 ✓ sig.
Erythematosquamous dermatosis netherton syndrome 0.043 1 1.43e-3 2.23e-3 ✓ sig.
nephrotic syndrome 14 Seborrheic dermatitis 0.026 1 2.40e-3 3.31e-3 ✓ sig.
netherton syndrome Seborrheic dermatitis 0.026 1 2.40e-3 3.31e-3 ✓ sig.
nephrotic syndrome 14 Uveal melanoma 0.024 1 2.60e-3 3.51e-3 ✓ sig.
intellectual developmental disorder 59 Psoriasis vulgaris 0.018 1 3.51e-3 4.52e-3 ✓ sig.