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 613
5
Diseases
6
Unique genes
0.282
Avg. similarity score
Congenital diarrhea
Most-connected disease (4 links)
Disease
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Node size = connections within this cluster · edge thickness = similarity strength · hover an edge for its details ·
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Congenital diarrhea
Colorectal cancer, hereditary nonpolyposis, type 8
Congenital epithelial dysplasia of intestine
Congenital tufting enteropathy
Congenital chronic diarrhea with protein-losing enteropathy
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Congenital diarrhea | 4 | 4 | 5 |
| Colorectal cancer, hereditary nonpolyposis, type 8 | 3 | 3 | 1 |
| Congenital epithelial dysplasia of intestine | 3 | 3 | 2 |
| Congenital tufting enteropathy | 3 | 3 | 1 |
| Congenital chronic diarrhea with protein-losing enteropathy | 1 | 1 | 2 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| EPCAM | 4 / 5 | Colorectal cancer, hereditary nonpolyposis, type 8, Congenital diarrhea, Congenital epithelial dysplasia of intestine, Congenital tufting enteropathy |
| DGAT1 | 2 / 5 | Congenital chronic diarrhea with protein-losing enteropathy, Congenital diarrhea |
| PLVAP | 2 / 5 | Congenital chronic diarrhea with protein-losing enteropathy, Congenital diarrhea |
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 ⇵ |
|---|---|---|---|---|---|
| Intestinal infectious diseases | Reactome | 1 / 2 | 1,001× | 9.99e-4 | 1.13e-2 ✓ sig. |
| Digestion | Reactome | 1 / 5 | 400× | 2.50e-3 | 2.23e-2 ✓ sig. |
| Acyl chain remodeling of DAG and TAG | Reactome | 1 / 7 | 286× | 3.49e-3 | 2.83e-2 ✓ sig. |
| Triglyceride biosynthesis | Reactome | 1 / 13 | 154× | 6.48e-3 | 4.32e-2 ✓ sig. |
| Fat digestion and absorption | KEGG | 1 / 43 | 46.6× | 2.13e-2 | 8.89e-2 |
| Virion - Hepatitis viruses | KEGG | 1 / 48 | 41.7× | 2.37e-2 | 9.46e-2 |
| Glycerolipid metabolism | KEGG | 1 / 64 | 31.3× | 3.16e-2 | 1.11e-1 |
| Retinol metabolism | KEGG | 1 / 68 | 29.4× | 3.35e-2 | 1.15e-1 |
| Cell surface interactions at the vascular wall | Reactome | 1 / 84 | 23.8× | 4.12e-2 | 1.30e-1 |
| Purine metabolism | KEGG | 1 / 128 | 15.6× | 6.23e-2 | 1.64e-1 |
| Hormone signaling | KEGG | 1 / 219 | 9.1× | 1.05e-1 | 2.22e-1 |
| Metabolic pathways | KEGG | 2 / 1,563 | 2.6× | 1.78e-1 | 3.07e-1 |
| Neutrophil degranulation | Reactome | 1 / 480 | 4.2× | 2.17e-1 | 3.49e-1 |
Enriched GO Terms (Biological Process, a second line of biological evidence)
| GO term ⇵ | GO ID ⇵ | Overlap genes ⇵ | Fold enrichment ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| positive regulation of cellular extravasation | GO:0002693 | 1 / 5 | 623× | 1.60e-3 | 1.88e-2 ✓ sig. |
| long-chain fatty-acyl-CoA metabolic process | GO:0035336 | 1 / 7 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| enteroendocrine cell differentiation | GO:0035883 | 1 / 7 | 445× | 2.25e-3 | 2.24e-2 ✓ sig. |
| monoacylglycerol biosynthetic process | GO:0006640 | 1 / 9 | 346× | 2.89e-3 | 2.55e-2 ✓ sig. |
| negative regulation of cell-cell adhesion mediated by cadherin | GO:2000048 | 1 / 11 | 283× | 3.53e-3 | 2.82e-2 ✓ sig. |
| receptor guanylyl cyclase signaling pathway | GO:0007168 | 1 / 11 | 283× | 3.53e-3 | 2.82e-2 ✓ sig. |
| very-low-density lipoprotein particle assembly | GO:0034379 | 1 / 12 | 260× | 3.85e-3 | 2.94e-2 ✓ sig. |
| cGMP biosynthetic process | GO:0006182 | 1 / 13 | 240× | 4.17e-3 | 3.06e-2 ✓ sig. |
| diacylglycerol metabolic process | GO:0046339 | 1 / 14 | 222× | 4.49e-3 | 3.17e-2 ✓ sig. |
| glycerolipid metabolic process | GO:0046486 | 1 / 15 | 208× | 4.81e-3 | 3.27e-2 ✓ sig. |
| regulation of vascular permeability | GO:0043114 | 1 / 16 | 195× | 5.13e-3 | 3.37e-2 ✓ sig. |
| fatty acid homeostasis | GO:0055089 | 1 / 18 | 173× | 5.77e-3 | 3.56e-2 ✓ sig. |
| cyclic nucleotide biosynthetic process | GO:0009190 | 1 / 18 | 173× | 5.77e-3 | 3.56e-2 ✓ sig. |
| digestive tract morphogenesis | GO:0048546 | 1 / 19 | 164× | 6.09e-3 | 3.65e-2 ✓ sig. |
| nucleosome disassembly | GO:0006337 | 1 / 21 | 148× | 6.72e-3 | 3.84e-2 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Congenital chronic diarrhea with protein-losing enteropathy | Congenital diarrhea | 0.333 | 2 | 8.34e-8 | 5.85e-7 ✓ sig. |
| Colorectal cancer, hereditary nonpolyposis, type 8 | Congenital tufting enteropathy | 0.500 | 1 | 6.46e-5 | 1.98e-4 ✓ sig. |
| Colorectal cancer, hereditary nonpolyposis, type 8 | Congenital epithelial dysplasia of intestine | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Congenital epithelial dysplasia of intestine | Congenital tufting enteropathy | 0.333 | 1 | 1.29e-4 | 3.27e-4 ✓ sig. |
| Colorectal cancer, hereditary nonpolyposis, type 8 | Congenital diarrhea | 0.167 | 1 | 3.23e-4 | 6.41e-4 ✓ sig. |
| Congenital diarrhea | Congenital tufting enteropathy | 0.167 | 1 | 3.23e-4 | 6.41e-4 ✓ sig. |
| Congenital diarrhea | Congenital epithelial dysplasia of intestine | 0.143 | 1 | 6.46e-4 | 1.09e-3 ✓ sig. |