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 522
5
Diseases
22
Unique genes
0.236
Avg. similarity score
Lipodystrophy
Most-connected disease (4 links)
Disease
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Lipodystrophy
Familial partial lipodystrophy
Hypoinsulinemic hypoglycemia and body hemihypertrophy
Partial lipodystrophy
Lipodystrophy syndrome with neurological features
Member diseases (most connected first ‐ the cluster's core)
| Disease ⇵ | Connections in cluster ⇵ | Significant partners ⇵ | Curated genes ⇵ |
|---|---|---|---|
| Lipodystrophy | 4 | 4 | 21 |
| Familial partial lipodystrophy | 3 | 3 | 7 |
| Hypoinsulinemic hypoglycemia and body hemihypertrophy | 3 | 3 | 1 |
| Partial lipodystrophy | 3 | 3 | 10 |
| Lipodystrophy syndrome with neurological features | 1 | 1 | 1 |
Top shared genes (genes linked to 2+ member diseases)
| Gene ⇵ | Member diseases ⇵ | Linked diseases |
|---|---|---|
| AKT2 | 4 / 5 | Familial partial lipodystrophy, Hypoinsulinemic hypoglycemia and body hemihypertrophy, Lipodystrophy, Partial lipodystrophy |
| CAV1 | 3 / 5 | Familial partial lipodystrophy, Lipodystrophy, Partial lipodystrophy |
| CIDEC | 3 / 5 | Familial partial lipodystrophy, Lipodystrophy, Partial lipodystrophy |
| LIPE | 3 / 5 | Familial partial lipodystrophy, Lipodystrophy, Partial lipodystrophy |
| LMNA | 3 / 5 | Familial partial lipodystrophy, Lipodystrophy, Partial lipodystrophy |
| PLIN1 | 3 / 5 | Familial partial lipodystrophy, Lipodystrophy, Partial lipodystrophy |
| PPARG | 3 / 5 | Familial partial lipodystrophy, Lipodystrophy, Partial lipodystrophy |
| ADRA2A | 2 / 5 | Lipodystrophy, Partial lipodystrophy |
| LMNB2 | 2 / 5 | Lipodystrophy, Partial lipodystrophy |
| PLAAT3 | 2 / 5 | Lipodystrophy, Lipodystrophy syndrome with neurological features |
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 ⇵ |
|---|---|---|---|---|---|
| Regulation of lipolysis in adipocytes | KEGG | 5 / 59 | 46.3× | 5.94e-8 | 3.55e-6 ✓ sig. |
| Apoptosis | KEGG | 4 / 137 | 15.9× | 1.01e-4 | 1.91e-3 ✓ sig. |
| Apelin signaling pathway | KEGG | 4 / 140 | 15.6× | 1.10e-4 | 2.05e-3 ✓ sig. |
| Glycerophospholipid metabolism | KEGG | 3 / 102 | 16.1× | 8.15e-4 | 9.69e-3 ✓ sig. |
| VEGFR2 mediated vascular permeability | Reactome | 2 / 29 | 37.6× | 1.26e-3 | 1.35e-2 ✓ sig. |
| AMPK signaling pathway | KEGG | 3 / 122 | 13.4× | 1.37e-3 | 1.44e-2 ✓ sig. |
| Dual Incision in GG-NER | Reactome | 2 / 41 | 26.6× | 2.52e-3 | 2.24e-2 ✓ sig. |
| Base excision repair | KEGG | 2 / 44 | 24.8× | 2.89e-3 | 2.49e-2 ✓ sig. |
| Adrenaline signalling through Alpha-2 adrenergic receptor | Reactome | 1 / 3 | 182× | 5.49e-3 | 3.87e-2 ✓ sig. |
| Inhibition of TSC complex formation by PKB | Reactome | 1 / 3 | 182× | 5.49e-3 | 3.87e-2 ✓ sig. |
| Breakdown of the nuclear lamina | Reactome | 1 / 3 | 182× | 5.49e-3 | 3.87e-2 ✓ sig. |
| Transcriptional regulation of white adipocyte differentiation | Reactome | 2 / 67 | 16.3× | 6.59e-3 | 4.37e-2 ✓ sig. |
| AKT-mediated inactivation of FOXO1A | Reactome | 1 / 4 | 136× | 7.31e-3 | 4.67e-2 ✓ sig. |
| Activation of AKT2 | Reactome | 1 / 4 | 136× | 7.31e-3 | 4.67e-2 ✓ sig. |
| PPAR signaling pathway | KEGG | 2 / 76 | 14.4× | 8.41e-3 | 5.11e-2 |
Enriched GO Terms (Biological Process, a second line of biological evidence)
| GO term ⇵ | GO ID ⇵ | Overlap genes ⇵ | Fold enrichment ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| negative regulation of lipid catabolic process | GO:0050995 | 3 / 21 | 121× | 1.86e-6 | 1.43e-4 ✓ sig. |
| nuclear envelope organization | GO:0006998 | 3 / 24 | 106× | 2.82e-6 | 2.00e-4 ✓ sig. |
| lipid metabolic process | GO:0006629 | 8 / 840 | 8.1× | 2.94e-6 | 2.06e-4 ✓ sig. |
| lipid storage | GO:0019915 | 3 / 32 | 79.6× | 6.87e-6 | 4.06e-4 ✓ sig. |
| lipid catabolic process | GO:0016042 | 4 / 119 | 28.6× | 1.05e-5 | 5.63e-4 ✓ sig. |
| nuclear pore localization | GO:0051664 | 2 / 5 | 340× | 1.32e-5 | 6.74e-4 ✓ sig. |
| ether lipid metabolic process | GO:0046485 | 2 / 6 | 283× | 1.98e-5 | 9.16e-4 ✓ sig. |
| protein localization to nuclear envelope | GO:0090435 | 2 / 8 | 212× | 3.69e-5 | 1.47e-3 ✓ sig. |
| phospholipid biosynthetic process | GO:0008654 | 3 / 58 | 43.9× | 4.19e-5 | 1.61e-3 ✓ sig. |
| negative regulation of cardiac muscle hypertrophy in response to stress | GO:1903243 | 2 / 11 | 154× | 7.23e-5 | 2.43e-3 ✓ sig. |
| lipid droplet organization | GO:0034389 | 2 / 18 | 94.4× | 2.00e-4 | 5.09e-3 ✓ sig. |
| regulation of smooth muscle contraction | GO:0006940 | 2 / 21 | 80.9× | 2.74e-4 | 6.35e-3 ✓ sig. |
| nuclear migration | GO:0007097 | 2 / 22 | 77.2× | 3.01e-4 | 6.80e-3 ✓ sig. |
| positive regulation of cell motility | GO:2000147 | 2 / 23 | 73.9× | 3.30e-4 | 7.16e-3 ✓ sig. |
| positive regulation of cholesterol efflux | GO:0010875 | 2 / 27 | 62.9× | 4.56e-4 | 8.93e-3 ✓ sig. |
Pairs within this cluster, by significance
| Disease A ⇵ | Disease B ⇵ | Similarity score ⇵ | Shared genes ⇵ | P-value ⇵ | FDR q-value ⇵ |
|---|---|---|---|---|---|
| Lipodystrophy | Partial lipodystrophy | 0.391 | 9 | 2.08e-26 | 3.74e-25 ✓ sig. |
| Familial partial lipodystrophy | Partial lipodystrophy | 0.636 | 7 | 2.83e-24 | 4.73e-23 ✓ sig. |
| Familial partial lipodystrophy | Lipodystrophy | 0.318 | 7 | 2.75e-21 | 4.19e-20 ✓ sig. |
| Familial partial lipodystrophy | Hypoinsulinemic hypoglycemia and body hemihypertrophy | 0.125 | 1 | 4.52e-4 | 8.26e-4 ✓ sig. |
| Hypoinsulinemic hypoglycemia and body hemihypertrophy | Partial lipodystrophy | 0.091 | 1 | 6.46e-4 | 1.09e-3 ✓ sig. |
| Hypoinsulinemic hypoglycemia and body hemihypertrophy | Lipodystrophy | 0.045 | 1 | 1.36e-3 | 1.97e-3 ✓ sig. |
| Lipodystrophy | Lipodystrophy syndrome with neurological features | 0.045 | 1 | 1.36e-3 | 1.97e-3 ✓ sig. |