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 258

8 diseases · 11 shared-gene connections
8 Diseases
317 Unique genes
0.082 Avg. similarity score
Sjogren syndrome Most-connected disease (6 links)
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Disease Searched: Developmental and epileptic encephalopathy, 41 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 ⇵
Sjogren syndrome 6 6 71
Myositis 4 4 61
Polymyositis 4 4 22
Dry eye syndrome 2 2 57
Kawasaki disease 2 2 64
Systemic sclerosis 2 2 129
Developmental and epileptic encephalopathy, 41 1 1 1
Hypotonia, infantile, with psychomotor retardation 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
BLK 5 / 8 Kawasaki disease, Myositis, Polymyositis, Sjogren syndrome and 1 more
HLA-DQB1 5 / 8 Kawasaki disease, Myositis, Polymyositis, Sjogren syndrome and 1 more
DGKQ 4 / 8 Myositis, Polymyositis, Sjogren syndrome, Systemic sclerosis
FAM167A 4 / 8 Kawasaki disease, Myositis, Polymyositis, Systemic sclerosis
PTPN22 4 / 8 Myositis, Polymyositis, Sjogren syndrome, Systemic sclerosis
STAT4 4 / 8 Myositis, Polymyositis, Sjogren syndrome, Systemic sclerosis
ATG5 3 / 8 Myositis, Sjogren syndrome, Systemic sclerosis
HLA-DQA1 3 / 8 Myositis, Sjogren syndrome, Systemic sclerosis
HLA-DRA 3 / 8 Myositis, Sjogren syndrome, Systemic sclerosis
HLA-DRB1 3 / 8 Myositis, Sjogren syndrome, Systemic sclerosis
IL1B 3 / 8 Dry eye syndrome, Polymyositis, Systemic sclerosis
IL6 3 / 8 Dry eye syndrome, Polymyositis, Sjogren syndrome
IRF5 3 / 8 Myositis, Sjogren syndrome, Systemic sclerosis
LTA 3 / 8 Kawasaki disease, Sjogren syndrome, Systemic sclerosis
NAB1 3 / 8 Myositis, Polymyositis, Systemic sclerosis
THSD7A 3 / 8 Dry eye syndrome, Polymyositis, Sjogren syndrome
TNF 3 / 8 Kawasaki disease, Polymyositis, Sjogren syndrome
TNFAIP3 3 / 8 Myositis, Sjogren syndrome, Systemic sclerosis
TNIP1 3 / 8 Myositis, Sjogren syndrome, Systemic sclerosis
TNPO3 3 / 8 Myositis, Sjogren syndrome, Systemic sclerosis
ARL14 2 / 8 Myositis, Systemic sclerosis
C1QL1 2 / 8 Dry eye syndrome, Sjogren syndrome
CCDC116 2 / 8 Myositis, Systemic sclerosis
CCDC174 2 / 8 Hypotonia, infantile, with psychomotor retardation, Sjogren syndrome
CCNG1 2 / 8 Dry eye syndrome, Sjogren syndrome
CCR5 2 / 8 Kawasaki disease, Sjogren syndrome
CXCR5 2 / 8 Sjogren syndrome, Systemic sclerosis
DCHS2 2 / 8 Dry eye syndrome, Sjogren syndrome
DNASE1L3 2 / 8 Myositis, Systemic sclerosis
DRD4 2 / 8 Myositis, Systemic sclerosis
EIF4H 2 / 8 Myositis, Systemic sclerosis
ELN 2 / 8 Polymyositis, Systemic sclerosis
FAM241B 2 / 8 Dry eye syndrome, Sjogren syndrome
FCGR2A 2 / 8 Kawasaki disease, Sjogren syndrome
GLS 2 / 8 Myositis, Systemic sclerosis
HLA-DPB1 2 / 8 Sjogren syndrome, Systemic sclerosis
IL12RB2 2 / 8 Myositis, Systemic sclerosis
IL1RN 2 / 8 Myositis, Sjogren syndrome
KCNB2 2 / 8 Dry eye syndrome, Sjogren syndrome
KCP 2 / 8 Sjogren syndrome, Systemic sclerosis
LIMK1 2 / 8 Myositis, Systemic sclerosis
MICB 2 / 8 Kawasaki disease, Myositis
MMP9 2 / 8 Sjogren syndrome, Systemic sclerosis
NAV2 2 / 8 Dry eye syndrome, Sjogren syndrome
NCF2 2 / 8 Myositis, Systemic sclerosis
NMT1 2 / 8 Dry eye syndrome, Sjogren syndrome
PHTF1 2 / 8 Myositis, Systemic sclerosis
PPP2R2B 2 / 8 Dry eye syndrome, Sjogren syndrome
PRR12 2 / 8 Myositis, Systemic sclerosis
PTPN11 2 / 8 Myositis, Systemic sclerosis
RSBN1 2 / 8 Myositis, Systemic sclerosis
SCT 2 / 8 Myositis, Systemic sclerosis
SDC2 2 / 8 Dry eye syndrome, Sjogren syndrome
SDK2 2 / 8 Myositis, Polymyositis
SLC1A2 2 / 8 Developmental and epileptic encephalopathy, 41, Myositis
SMG7 2 / 8 Myositis, Systemic sclerosis
TNFSF4 2 / 8 Myositis, Systemic sclerosis
TSBP1 2 / 8 Kawasaki disease, Sjogren syndrome
TWIST2 2 / 8 Dry eye syndrome, Sjogren syndrome
TYK2 2 / 8 Myositis, Systemic sclerosis
YDJC 2 / 8 Myositis, Systemic sclerosis
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 ⇵
Inflammatory bowel disease
IL1B, IL6, TGFB1, IL1A, STAT4, TNF, HLA-DOB, HLA-DQB1, HLA-DQB2, IL18, HLA-DQA1, HLA-DRA
 KEGG 24 / 66 13.8× 1.26e-21 1.25e-18 ✓ sig.
Leishmaniasis
IL1B, TGFB1, IL1A, TNF, FCGR2A, HLA-DOB, HLA-DQB1, HLA-DQB2, FCGR3A, HLA-DQA1, HLA-DRA, HLA-DRB1
 KEGG 23 / 78 11.2× 2.08e-18 1.21e-15 ✓ sig.
Allograft rejection
TNF, CD40, CD40LG, HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, IL10, IL12A, HLA-B
 KEGG 16 / 39 15.5× 8.30e-16 2.90e-13 ✓ sig.
Toxoplasmosis
TGFB1, TNF, CASP3, CCR5, CD40, CD40LG, HLA-DOB, HLA-DQB1, HLA-DQB2, HSPA1A, HSPA1L, HLA-DQA1
 KEGG 24 / 112 8.1× 1.16e-15 3.95e-13 ✓ sig.
Type I diabetes mellitus
IL1B, IL1A, TNF, HLA-DOB, HLA-DQB1, HLA-DQB2, LTA, HLA-DQA1, HLA-DRA, HLA-DRB1, IL12A, HLA-B
 KEGG 16 / 44 13.8× 8.14e-15 2.35e-12 ✓ sig.
Phosphorylation of CD3 and TCR zeta chains
HLA-DQB1, HLA-DQB2, PTPRC, PTPRJ, HLA-DQA1, HLA-DRA, HLA-DRB1, PTPN22, HLA-DPB1, CD247, CSK, HLA-DPA1
 Reactome 12 / 22 20.7× 4.75e-14 1.20e-11 ✓ sig.
Graft-versus-host disease
IL1B, IL6, IL1A, TNF, HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, HLA-B, HLA-DPB1
 KEGG 15 / 45 12.6× 2.55e-13 5.42e-11 ✓ sig.
Rheumatoid arthritis
IL1B, IL6, TGFB1, IL1A, TNF, HLA-DOB, HLA-DQB1, HLA-DQB2, IL18, VEGFA, ATP6V1G2, HLA-DQA1
 KEGG 20 / 95 8.0× 4.23e-13 8.70e-11 ✓ sig.
Tuberculosis
IL1B, IL6, TGFB1, CYP27B1, IL1A, TNF, CASP3, FCGR2A, HLA-DOB, HLA-DQB1, HLA-DQB2, IL18
 KEGG 26 / 181 5.4× 1.55e-12 2.83e-10 ✓ sig.
Interleukin-10 signaling
IL1B, IL6, IL1A, TNF, CCR2, CCR5, IL18, IL1RN, TYK2, IL10, IL12A, CD86
 Reactome 14 / 47 11.3× 9.33e-12 1.43e-9 ✓ sig.
Asthma
TNF, CD40, CD40LG, HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, IL10, HLA-DPB1, HLA-DPA1
 KEGG 12 / 32 14.2× 1.31e-11 1.93e-9 ✓ sig.
Intestinal immune network for IgA production
IL6, TGFB1, CD40, CD40LG, HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, IL10, HLA-DPB1
 KEGG 14 / 50 10.6× 2.38e-11 3.32e-9 ✓ sig.
Interleukin-4 and Interleukin-13 signaling
IL1B, IL6, MUC1, TGFB1, IL1A, TNF, IL18, VEGFA, TYK2, IL10, IL12A, MMP9
 Reactome 19 / 108 6.7× 4.69e-11 6.04e-9 ✓ sig.
Th17 cell differentiation
IL1B, IL6, TGFB1, HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, TYK2, HLA-DPB1, CD247
 KEGG 19 / 109 6.6× 5.55e-11 6.99e-9 ✓ sig.
Autoimmune thyroid disease
CD40, CD40LG, HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, CTLA4, IL10, HLA-B, HLA-DPB1
 KEGG 14 / 54 9.8× 7.50e-11 9.12e-9 ✓ 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 ⇵
immune response
XCL2, IL1B, IL6, IL1A, STAT4, TNF, CCR2, CCR5, CD40LG, HLA-DOB, HLA-DQB1, HLA-DQB2
 GO:0006955 42 / 543 4.6× 1.74e-16 1.61e-13 ✓ sig.
positive regulation of type II interferon production
IL1B, TNF, CCR2, IL18, LTA, IL12RB2, PDE4D, PTPN22, TNFSF4, TYK2, IL18R1, IL12A
 GO:0032729 18 / 77 13.8× 5.53e-16 4.73e-13 ✓ sig.
inflammatory response
HK1, XCL2, IL1B, IL6, TGFB1, IL1A, TNF, CCR2, CCR5, CD40, CD40LG, CRP
 GO:0006954 32 / 467 4.0× 2.17e-11 7.65e-9 ✓ sig.
antigen processing and presentation of peptide or polysaccharide antigen via MHC class II
HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, HLA-DPB1, HLA-DPA1
 GO:0002504 8 / 15 31.4× 3.64e-11 1.23e-8 ✓ sig.
antigen processing and presentation of exogenous peptide antigen via MHC class II
HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, TRAF6, HLA-DPB1, FCGR2B, HLA-DPA1
 GO:0019886 10 / 31 19.0× 5.54e-11 1.80e-8 ✓ sig.
cellular response to lipopolysaccharide
IL1B, IL6, IL1A, TNF, CCR5, CD40, IL18, NFKBIL1, TNFAIP3, TNFSF4, TNIP1, TRAF6
 GO:0071222 20 / 187 6.3× 6.51e-11 2.08e-8 ✓ sig.
peptide antigen assembly with MHC class II protein complex
HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, HLA-DPB1, HLA-DPA1
 GO:0002503 8 / 16 29.5× 7.18e-11 2.27e-8 ✓ sig.
positive regulation of T cell proliferation
SELENOK, IL1B, IL6, BTNL2, CD40LG, PTPRC, TNFSF4, TRAF6, TYK2, HLA-DPB1, CD86, HLA-DPA1
 GO:0042102 13 / 67 11.4× 8.41e-11 2.61e-8 ✓ sig.
cytokine-mediated signaling pathway
IL1B, IL6, IL1A, STAT4, CCR2, IL18, PTPRJ, IL12RB2, IRF5, PTPN11, TYK2, CAV1
 GO:0019221 17 / 145 6.9× 4.30e-10 1.12e-7 ✓ sig.
response to lipopolysaccharide
DUSP10, GCH1, IL1B, CYP27B1, TNF, CASP3, LTA, PELI1, IL12RB2, PTPN22, SOD2, CYP1A1
 GO:0032496 17 / 161 6.2× 2.21e-9 4.63e-7 ✓ sig.
positive regulation of tumor necrosis factor production
SELENOK, IL6, TGFB1, IL1A, CCR2, FCGR2A, PTPRC, PTPRJ, FCGR3A, PTPN11, CLU, FCGR2B
 GO:0032760 14 / 113 7.3× 7.44e-9 1.36e-6 ✓ sig.
positive regulation of immune response
HLA-DOB, HLA-DQB1, HLA-DQB2, PTPRJ, HLA-DQA1, HLA-DRA, HLA-DRB1, HLA-DPB1, HLA-DPA1
 GO:0050778 9 / 40 13.3× 1.79e-8 2.92e-6 ✓ sig.
positive regulation of T cell activation
CCR2, HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, HLA-DPB1, HLA-DPA1
 GO:0050870 9 / 45 11.8× 5.38e-8 7.55e-6 ✓ sig.
positive regulation of canonical NF-kappaB signal transduction
IL1B, TGFB1, IL1A, TNF, CD40, CD40LG, LTA, PELI1, VEGFA, HLA-DRB1, TRAF6, IRAK1BP1
 GO:0043123 18 / 232 4.6× 9.52e-8 1.21e-5 ✓ sig.
antigen processing and presentation
HLA-DOB, HLA-DQB1, HLA-DQB2, HLA-DQA1, HLA-DRA, HLA-DRB1, HLA-B, HLA-DPB1, HLA-DPA1
 GO:0019882 9 / 48 11.1× 9.74e-8 1.24e-5 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Myositis Systemic sclerosis 0.209 33 4.51e-54 1.27e-52 ✓ sig.
Sjogren syndrome Systemic sclerosis 0.098 18 2.34e-22 3.69e-21 ✓ sig.
Myositis Sjogren syndrome 0.118 14 8.84e-21 1.33e-19 ✓ sig.
Dry eye syndrome Sjogren syndrome 0.103 12 1.95e-17 2.61e-16 ✓ sig.
Myositis Polymyositis 0.105 8 1.10e-14 1.31e-13 ✓ sig.
Polymyositis Sjogren syndrome 0.093 8 3.95e-14 4.56e-13 ✓ sig.
Kawasaki disease Sjogren syndrome 0.054 7 1.59e-8 1.23e-7 ✓ sig.
Kawasaki disease Polymyositis 0.048 4 1.83e-6 1.08e-5 ✓ sig.
Dry eye syndrome Polymyositis 0.039 3 6.93e-5 2.13e-4 ✓ sig.
Developmental and epileptic encephalopathy, 41 Myositis 0.016 1 3.94e-3 4.83e-3 ✓ sig.
Hypotonia, infantile, with psychomotor retardation Sjogren syndrome 0.014 1 4.58e-3 5.54e-3 ✓ sig.