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 1
81
Diseases
678
Unique genes
0.167
Avg. similarity score
Bouillaud’s disease
Most-connected disease (42 links)
Disease
Searched: Diabetic nephropathy type 1
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Diabetic nephropathy type 1
Bouillaud’s disease
Autoimmune polyendocrine syndrome
Oropharyngeal neoplasms
Pemphigus vulgaris
Skeletal system disease
Wheat allergic reaction
Acute disseminated encephalomyelitis
Uveomeningoencephalitic syndrome
Benign mucous membrane pemphigoid with ocular involvement
Henoch schoenlein purpura
Central nervous system non-hodgkin lymphoma
Esophageal achalasia
Chorea
Antiphospholipid syndrome
Cervical intraepithelial neoplasia
Gastritis
Interstitial cystitis
Narcolepsy
Pemphigus
Autoimmune pancreatitis
Benign hereditary chorea
Benign mucous membrane pemphigoid
Bullous pemphigoid
Cutaneous lupus erythematosus
Latent autoimmune diabetes in adults
Autoimmune musculoskeletal system disorder
Gastroparesis
Lymphedema
Membranous glomerulonephritis
Thyroiditis
Vogt-koyanagi-harada disease
Arthritis
Bronchitis
Cartilage disease
Collagenous colitis
Cryoglobulinemia
Lymphoma
Myasthenia gravis
Nasopharyngeal neoplasms
Obstructive asthma
Ocular sarcoidosis
Optic neuritis
Apolipoprotein b hypobetalipoproteinemia
Churg-strauss syndrome
Hepatitis c induced liver cirrhosis
Lupus nephritis
Rosacea
Sinusitis
Thiopurine immunosuppressant-induced pancreatitis
Tonsil cancer
Anti-neutrophil antibody associated vasculitis
Immune system disease
Oral cavity carcinoma
Choreoacanthocytosis
Diffuse large b-cell lymphoma
Disabling pansclerotic morphea of childhood
Intellectual developmental disorder seizures movement
Waldenstrom macroglobulinemia
immunodeficiency 60
Autoimmune gastritis
Autonomic nervous system disease
Birbeck granule deficiency
Cataplexy and narcolepsy
Hypoparathyroidism
IMPDH1-related retinopathy
KIZ-related retinopathy
Keratosis palmoplantaris papulosa
Neurodevelopmental disorder with dilated cardiomyopathy
Peeling skin syndrome with leukonychia and acral punctate keratoses
Uric acid urolithiasis
autosomal recessive osteopetrosis 3
congenital disorder of glycosylation type II
distal myopathy with vocal cord weakness
hsd10 mitochondrial disease
immunodeficiency 106, susceptibility to viral infections
immunodeficiency 126, susceptibility to
neurodevelopmental disorder with microcephaly, seizures, and cortical atrophy
optic atrophy 10 with or without ataxia, intellectual disability, and seizures
platelet abnormalities with eosinophilia and immune-mediated inflammatory disease
scalp-ear-nipple syndrome
Member diseases (most connected first ‐ the cluster's core)
Top shared genes (genes linked to 2+ member diseases ‐ top 100 shown, download for all)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| HLA-DQA1 | 42 / 81 | Anti-neutrophil antibody associated vasculitis, Antiphospholipid syndrome, Arthritis, Autoimmune musculoskeletal system disorder and 38 more |
| HLA-DQB1 | 36 / 81 | Acute disseminated encephalomyelitis, Antiphospholipid syndrome, Apolipoprotein b hypobetalipoproteinemia, Arthritis and 32 more |
| HLA-DRB1 | 36 / 81 | Acute disseminated encephalomyelitis, Antiphospholipid syndrome, Autoimmune musculoskeletal system disorder, Autoimmune polyendocrine syndrome and 32 more |
| HLA-B | 8 / 81 | Cervical intraepithelial neoplasia, Diffuse large b-cell lymphoma, Immune system disease, Membranous glomerulonephritis and 4 more |
| HLA-DRA | 7 / 81 | Antiphospholipid syndrome, Bullous pemphigoid, Henoch schoenlein purpura, Hepatitis c induced liver cirrhosis and 3 more |
| HLA-DQB3 | 6 / 81 | Anti-neutrophil antibody associated vasculitis, Henoch schoenlein purpura, Interstitial cystitis, Narcolepsy and 2 more |
| IRF4 | 6 / 81 | Central nervous system non-hodgkin lymphoma, Diffuse large b-cell lymphoma, Lymphoma, Membranous glomerulonephritis and 2 more |
| PTPN22 | 6 / 81 | Diabetic nephropathy type 1, Immune system disease, Latent autoimmune diabetes in adults, Myasthenia gravis and 2 more |
| FAS | 5 / 81 | Diffuse large b-cell lymphoma, Lupus nephritis, Myasthenia gravis, Uveomeningoencephalitic syndrome and 1 more |
| HLA-DRB5 | 5 / 81 | Acute disseminated encephalomyelitis, Bullous pemphigoid, Central nervous system non-hodgkin lymphoma, Henoch schoenlein purpura and 1 more |
| C3 | 4 / 81 | Henoch schoenlein purpura, Lupus nephritis, Membranous glomerulonephritis, Pemphigus |
| C6ORF15 | 4 / 81 | Immune system disease, Membranous glomerulonephritis, Myasthenia gravis, Nasopharyngeal neoplasms |
| CTLA4 | 4 / 81 | Immune system disease, Latent autoimmune diabetes in adults, Lupus nephritis, Myasthenia gravis |
| EXOC2 | 4 / 81 | Central nervous system non-hodgkin lymphoma, Diffuse large b-cell lymphoma, Lymphoma, Waldenstrom macroglobulinemia |
| HLA-DPB1 | 4 / 81 | Anti-neutrophil antibody associated vasculitis, Gastroparesis, Myasthenia gravis, Narcolepsy |
| STAT4 | 4 / 81 | Autoimmune musculoskeletal system disorder, Disabling pansclerotic morphea of childhood, Immune system disease, Uveomeningoencephalitic syndrome |
| ATXN2 | 3 / 81 | Immune system disease, Latent autoimmune diabetes in adults, Myasthenia gravis |
| BACH2 | 3 / 81 | Central nervous system non-hodgkin lymphoma, immunodeficiency 60, Latent autoimmune diabetes in adults |
| CDKN2A | 3 / 81 | Diffuse large b-cell lymphoma, Lymphoma, Nasopharyngeal neoplasms |
| CLPTM1L | 3 / 81 | Cervical intraepithelial neoplasia, Nasopharyngeal neoplasms, Oral cavity carcinoma |
| CRP | 3 / 81 | Antiphospholipid syndrome, Arthritis, Lupus nephritis |
| HLA-DOB | 3 / 81 | Bullous pemphigoid, Interstitial cystitis, Lymphoma |
| HLA-DPA1 | 3 / 81 | Anti-neutrophil antibody associated vasculitis, Interstitial cystitis, Ocular sarcoidosis |
| HLA-DQB2 | 3 / 81 | Bullous pemphigoid, Interstitial cystitis, Lymphoma |
| ITGAM | 3 / 81 | Autoimmune musculoskeletal system disorder, Cutaneous lupus erythematosus, Lupus nephritis |
| MOG | 3 / 81 | Narcolepsy, Nasopharyngeal neoplasms, Optic neuritis |
| MYD88 | 3 / 81 | Diffuse large b-cell lymphoma, Lymphoma, Waldenstrom macroglobulinemia |
| NOTCH4 | 3 / 81 | Cryoglobulinemia, Interstitial cystitis, Lupus nephritis |
| PDE2A | 3 / 81 | Chorea, Intellectual developmental disorder seizures movement, Oral cavity carcinoma |
| VPS13A | 3 / 81 | Benign hereditary chorea, Chorea, Choreoacanthocytosis |
| ABCB1 | 2 / 81 | Cryoglobulinemia, Diffuse large b-cell lymphoma |
| ADCY5 | 2 / 81 | Benign hereditary chorea, Chorea |
| AIRE | 2 / 81 | Autoimmune polyendocrine syndrome, Hypoparathyroidism |
| ARPC1B | 2 / 81 | Gastritis, platelet abnormalities with eosinophilia and immune-mediated inflammatory disease |
| ATP4B | 2 / 81 | Autoimmune gastritis, Gastritis |
| ATP6AP1 | 2 / 81 | congenital disorder of glycosylation type II, Lymphoma |
| B2M | 2 / 81 | Arthritis, Diffuse large b-cell lymphoma |
| BCL2 | 2 / 81 | Diffuse large b-cell lymphoma, Lymphoma |
| BTNL2 | 2 / 81 | Hepatitis c induced liver cirrhosis, Membranous glomerulonephritis |
| CA2 | 2 / 81 | Autoimmune pancreatitis, autosomal recessive osteopetrosis 3 |
| CACNA2D2 | 2 / 81 | Benign hereditary chorea, Chorea |
| CAMK2D | 2 / 81 | Bronchitis, Neurodevelopmental disorder with dilated cardiomyopathy |
| CAST | 2 / 81 | Peeling skin syndrome with leukonychia and acral punctate keratoses, Pemphigus |
| CAT | 2 / 81 | Diffuse large b-cell lymphoma, Optic neuritis |
| CCL2 | 2 / 81 | Henoch schoenlein purpura, Lupus nephritis |
| CD207 | 2 / 81 | Birbeck granule deficiency, Narcolepsy |
| CD40 | 2 / 81 | Arthritis, Pemphigus |
| CD40LG | 2 / 81 | Antiphospholipid syndrome, Lupus nephritis |
| CD86 | 2 / 81 | Diffuse large b-cell lymphoma, Henoch schoenlein purpura |
| CDH18 | 2 / 81 | Antiphospholipid syndrome, Gastritis |
| CDKN2B | 2 / 81 | Lymphoma, Nasopharyngeal neoplasms |
| CEP43 | 2 / 81 | Immune system disease, Myasthenia gravis |
| CFB | 2 / 81 | Membranous glomerulonephritis, Myasthenia gravis |
| CHRNA1 | 2 / 81 | Immune system disease, Myasthenia gravis |
| COL11A2 | 2 / 81 | Cartilage disease, Interstitial cystitis |
| COL14A1 | 2 / 81 | Gastritis, Keratosis palmoplantaris papulosa |
| COL2A1 | 2 / 81 | Arthritis, Cartilage disease |
| CXCL8 | 2 / 81 | Bullous pemphigoid, Gastritis |
| CYP2A6 | 2 / 81 | Bronchitis, Nasopharyngeal neoplasms |
| DDX6 | 2 / 81 | Immune system disease, Lymphoma |
| EGFR | 2 / 81 | Nasopharyngeal neoplasms, Ocular sarcoidosis |
| ELMO1 | 2 / 81 | Autonomic nervous system disease, Immune system disease |
| EZH2 | 2 / 81 | Diffuse large b-cell lymphoma, Lymphoma |
| FAM76B | 2 / 81 | Immune system disease, Myasthenia gravis |
| FCGR3A | 2 / 81 | Arthritis, Lupus nephritis |
| FKBPL | 2 / 81 | Interstitial cystitis, Membranous glomerulonephritis |
| FRMD4A | 2 / 81 | Antiphospholipid syndrome, Ocular sarcoidosis |
| GATA2 | 2 / 81 | Cartilage disease, Lymphedema |
| GRB7 | 2 / 81 | Immune system disease, Myasthenia gravis |
| GSTM1 | 2 / 81 | Gastritis, Optic neuritis |
| HLA-C | 2 / 81 | Interstitial cystitis, Sinusitis |
| HLA-DOA | 2 / 81 | Interstitial cystitis, Ocular sarcoidosis |
| HSD17B10 | 2 / 81 | Chorea, hsd10 mitochondrial disease |
| IFNA2 | 2 / 81 | Lymphoma, Uveomeningoencephalitic syndrome |
| IFNAR1 | 2 / 81 | immunodeficiency 106, susceptibility to viral infections, Narcolepsy |
| IKZF1 | 2 / 81 | Lymphoma, Rosacea |
| IKZF3 | 2 / 81 | Immune system disease, Myasthenia gravis |
| IL2 | 2 / 81 | Bullous pemphigoid, Pemphigus |
| IL23R | 2 / 81 | Arthritis, Vogt-koyanagi-harada disease |
| IMPDH1 | 2 / 81 | IMPDH1-related retinopathy, Thyroiditis |
| KCNMB2 | 2 / 81 | Cutaneous lupus erythematosus, Diabetic nephropathy type 1 |
| KCTD1 | 2 / 81 | Ocular sarcoidosis, scalp-ear-nipple syndrome |
| KIZ | 2 / 81 | KIZ-related retinopathy, Lupus nephritis |
| KMT2D | 2 / 81 | Diffuse large b-cell lymphoma, Lymphoma |
| MAGI3 | 2 / 81 | Immune system disease, Myasthenia gravis |
| MATR3 | 2 / 81 | distal myopathy with vocal cord weakness, Vogt-koyanagi-harada disease |
| MET | 2 / 81 | Lymphedema, Sinusitis |
| MICA | 2 / 81 | Cervical intraepithelial neoplasia, Thyroiditis |
| MMP2 | 2 / 81 | Lupus nephritis, Nasopharyngeal neoplasms |
| MUC21 | 2 / 81 | Apolipoprotein b hypobetalipoproteinemia, Cutaneous lupus erythematosus |
| MUCL3 | 2 / 81 | Interstitial cystitis, Membranous glomerulonephritis |
| NKX2-1 | 2 / 81 | Benign hereditary chorea, Chorea |
| P2RY11 | 2 / 81 | Cataplexy and narcolepsy, Narcolepsy |
| PDCD1 | 2 / 81 | Lupus nephritis, Narcolepsy |
| PFKFB3 | 2 / 81 | Latent autoimmune diabetes in adults, Ocular sarcoidosis |
| POMC | 2 / 81 | Immune system disease, Myasthenia gravis |
| PON1 | 2 / 81 | Henoch schoenlein purpura, Lymphoma |
| PPAN | 2 / 81 | Cataplexy and narcolepsy, Narcolepsy |
| PPAN-P2RY11 | 2 / 81 | Cataplexy and narcolepsy, Narcolepsy |
| PPP1R10 | 2 / 81 | Interstitial cystitis, Pemphigus vulgaris |
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 ⇵ |
|---|---|---|---|---|---|
| Leishmaniasis | KEGG | 33 / 78 | 7.5× | 2.94e-21 | 2.42e-18 ✓ sig. |
| Allograft rejection | KEGG | 23 / 39 | 10.4× | 2.17e-19 | 1.38e-16 ✓ sig. |
| Type I diabetes mellitus | KEGG | 23 / 44 | 9.3× | 8.86e-18 | 4.26e-15 ✓ sig. |
| Tuberculosis | KEGG | 45 / 181 | 4.4× | 9.60e-18 | 4.59e-15 ✓ sig. |
| Autoimmune thyroid disease | KEGG | 25 / 54 | 8.2× | 1.44e-17 | 6.72e-15 ✓ sig. |
| Toxoplasmosis | KEGG | 34 / 112 | 5.4× | 1.46e-16 | 5.74e-14 ✓ sig. |
| Graft-versus-host disease | KEGG | 22 / 45 | 8.7× | 2.98e-16 | 1.11e-13 ✓ sig. |
| Rheumatoid arthritis | KEGG | 31 / 95 | 5.8× | 3.29e-16 | 1.22e-13 ✓ sig. |
| Herpes simplex virus 1 infection | KEGG | 42 / 182 | 4.1× | 2.14e-15 | 7.10e-13 ✓ sig. |
| Inflammatory bowel disease | KEGG | 25 / 66 | 6.7× | 4.69e-15 | 1.46e-12 ✓ sig. |
| Asthma | KEGG | 17 / 32 | 9.4× | 1.26e-13 | 3.01e-11 ✓ sig. |
| Th1 and Th2 cell differentiation | KEGG | 27 / 93 | 5.1× | 6.73e-13 | 1.43e-10 ✓ sig. |
| Epstein-Barr virus infection | KEGG | 40 / 204 | 3.5× | 2.90e-12 | 5.41e-10 ✓ sig. |
| Human T-cell leukemia virus 1 infection | KEGG | 42 / 224 | 3.3× | 3.87e-12 | 7.10e-10 ✓ sig. |
| Influenza A | KEGG | 36 / 173 | 3.7× | 5.94e-12 | 1.06e-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 | GO:0006955 | 70 / 543 | 3.6× | 1.49e-20 | 2.56e-17 ✓ sig. |
| peptide antigen assembly with MHC class II protein complex | GO:0002503 | 14 / 16 | 24.1× | 6.74e-19 | 8.99e-16 ✓ sig. |
| positive regulation of T cell activation | GO:0050870 | 20 / 45 | 12.2× | 1.61e-17 | 1.71e-14 ✓ sig. |
| antigen processing and presentation of peptide or polysaccharide antigen via MHC class II | GO:0002504 | 13 / 15 | 23.9× | 1.66e-17 | 1.76e-14 ✓ sig. |
| positive regulation of immune response | GO:0050778 | 16 / 40 | 11.0× | 2.11e-13 | 1.08e-10 ✓ sig. |
| cellular response to lipopolysaccharide | GO:0071222 | 32 / 187 | 4.7× | 2.25e-13 | 1.15e-10 ✓ sig. |
| positive regulation of cell population proliferation | GO:0008284 | 56 / 532 | 2.9× | 7.92e-13 | 3.63e-10 ✓ sig. |
| antigen processing and presentation of exogenous peptide antigen via MHC class II | GO:0019886 | 14 / 31 | 12.4× | 8.99e-13 | 4.08e-10 ✓ sig. |
| antigen processing and presentation | GO:0019882 | 16 / 48 | 9.2× | 5.79e-12 | 2.23e-9 ✓ sig. |
| phosphatidylinositol 3-kinase/protein kinase B signal transduction | GO:0043491 | 21 / 92 | 6.3× | 1.06e-11 | 3.84e-9 ✓ sig. |
| immune system process | GO:0002376 | 77 / 943 | 2.3× | 1.86e-11 | 6.38e-9 ✓ sig. |
| cell surface receptor signaling pathway via JAK-STAT | GO:0007259 | 17 / 67 | 7.0× | 1.66e-10 | 4.47e-8 ✓ sig. |
| regulation of cell population proliferation | GO:0042127 | 29 / 201 | 4.0× | 2.21e-10 | 5.73e-8 ✓ sig. |
| positive regulation of cytokine production | GO:0001819 | 18 / 81 | 6.1× | 5.11e-10 | 1.20e-7 ✓ sig. |
| response to lipopolysaccharide | GO:0032496 | 25 / 161 | 4.3× | 8.14e-10 | 1.80e-7 ✓ sig. |