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 38

17 diseases · 57 shared-gene connections
17 Diseases
80 Unique genes
0.278 Avg. similarity score
Cavernous hemangioma Most-connected disease (14 links)
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Disease Searched: Askin tumor 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 ⇵
Cavernous hemangioma 14 14 3
Extraskeletal ewing sarcoma 14 14 4
Skeletal ewing sarcoma 13 13 5
Osteochondroma 10 10 5
Askin tumor 9 9 5
Benign fibrous histiocytoma 6 6 1
Bleeding disorder, platelet-type, 21 6 6 1
Hematopoietic and lymphoid cell neoplasm 6 6 8
Paris-trousseau thrombocytopenia 6 6 1
Ectomesenchymoma 5 5 7
Ewing sarcoma 5 5 10
Pineoblastoma 5 5 6
Spindle cell sarcoma 5 5 13
Osteogenic sarcoma 4 4 21
Congenital left-sided heart lesions 3 3 25
Angiomatoid fibrous histiocytoma 2 2 2
Tolchin-le caignec syndrome 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
FLI1 15 / 17 Askin tumor, Benign fibrous histiocytoma, Bleeding disorder, platelet-type, 21, Cavernous hemangioma and 11 more
EWSR1 12 / 17 Angiomatoid fibrous histiocytoma, Askin tumor, Cavernous hemangioma, Ectomesenchymoma and 8 more
ERG 10 / 17 Askin tumor, Cavernous hemangioma, Ectomesenchymoma, Ewing sarcoma and 6 more
ETV1 2 / 17 Ewing sarcoma, Skeletal ewing sarcoma
FUS 2 / 17 Askin tumor, Spindle cell sarcoma
LRP1B 2 / 17 Hematopoietic and lymphoid cell neoplasm, Osteogenic sarcoma
SOX6 2 / 17 Osteochondroma, Tolchin-le caignec syndrome
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 ⇵
Prostate cancer
CREB1, ERG, RB1, TP53, EGFR, BRAF, CREB3L2, PIK3CA, HRAS, PTEN, FOXO1
 KEGG 11 / 98 16.9× 3.96e-11 5.23e-9 ✓ sig.
Non-small cell lung cancer
RB1, EML4, TP53, EGFR, RET, BRAF, PIK3CA, CDKN2A, HRAS
 KEGG 9 / 73 18.5× 1.12e-9 1.03e-7 ✓ sig.
Transcriptional misregulation in cancer
EWSR1, FLI1, ERG, ETV1, ETV4, H3-3A, ETV6, TP53, NR4A3, FUS, PAX3, FOXO1
 KEGG 12 / 198 9.1× 6.53e-9 5.06e-7 ✓ sig.
Melanoma
RB1, TP53, EGFR, BRAF, PIK3CA, CDKN2A, HRAS, PTEN
 KEGG 8 / 73 16.5× 2.57e-8 1.70e-6 ✓ sig.
Glioma
RB1, TP53, EGFR, BRAF, PIK3CA, CDKN2A, HRAS, PTEN
 KEGG 8 / 76 15.8× 3.55e-8 2.26e-6 ✓ sig.
Chronic myeloid leukemia
PTPN11, RB1, ABL1, TP53, BRAF, PIK3CA, CDKN2A, HRAS
 KEGG 8 / 77 15.6× 3.94e-8 2.48e-6 ✓ sig.
Endometrial cancer
CTNNA2, TP53, EGFR, BRAF, PIK3CA, HRAS, PTEN
 KEGG 7 / 59 17.8× 1.15e-7 6.33e-6 ✓ sig.
Hepatocellular carcinoma
RB1, TP53, EGFR, SMARCB1, BRAF, ARID1A, PIK3CA, CDKN2A, HRAS, PTEN
 KEGG 10 / 170 8.8× 1.74e-7 9.04e-6 ✓ sig.
Human T-cell leukemia virus 1 infection
CREB1, EGR2, CHEK2, RB1, B2M, TP53, CREB3L2, PIK3CA, CDKN2A, HRAS, PTEN
 KEGG 11 / 224 7.4× 2.52e-7 1.26e-5 ✓ sig.
Bladder cancer
RB1, TP53, EGFR, BRAF, CDKN2A, HRAS
 KEGG 6 / 41 22.0× 2.70e-7 1.33e-5 ✓ sig.
Central carbon metabolism in cancer
TP53, EGFR, RET, KIT, PIK3CA, HRAS, PTEN
 KEGG 7 / 71 14.8× 4.21e-7 1.97e-5 ✓ sig.
Pathways in cancer
RB1, ABL1, EML4, CTNNA2, TP53, EGFR, RET, KIT, BRAF, SUFU, PIK3CA, CDKN2A
 KEGG 15 / 533 4.2× 1.93e-6 7.32e-5 ✓ sig.
Longevity regulating pathway
CREB1, TP53, CREB3L2, PIK3CA, STK11, HRAS, FOXO1
 KEGG 7 / 90 11.7× 2.14e-6 8.00e-5 ✓ sig.
Endocrine resistance
RB1, TP53, EGFR, BRAF, PIK3CA, CDKN2A, HRAS
 KEGG 7 / 99 10.6× 4.06e-6 1.38e-4 ✓ sig.
Breast cancer
RB1, TP53, EGFR, KIT, BRAF, PIK3CA, HRAS, PTEN
 KEGG 8 / 148 8.1× 6.03e-6 1.92e-4 ✓ 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 ⇵
regulation of DNA-templated transcription
CREB1, EWSR1, DACH1, FLI1, HIVEP3, TFDP2, EGR2, ERG, SMARCA5, CHEK2, RB1, ETV1
 GO:0006355 25 / 1,454 4.0× 8.51e-10 2.02e-7 ✓ sig.
regulation of transcription by RNA polymerase II
CREB1, DACH1, FLI1, HIVEP3, TFDP2, ZNF438, EGR2, ERG, SMARCA5, RB1, ETV1, ETV4
 GO:0006357 26 / 1,602 3.8× 1.21e-9 2.73e-7 ✓ sig.
positive regulation of transcription by RNA polymerase II
CREB1, FLI1, TFDP2, EGR2, ERG, SMARCA5, RB1, ETV1, ETV4, ABL1, ETV6, CDK12
 GO:0045944 22 / 1,208 4.3× 4.08e-9 8.00e-7 ✓ sig.
positive regulation of DNA-templated transcription
CREB1, AFAP1L2, FLI1, HIVEP3, EGR2, SMARCA5, CHEK2, ETV1, TP53, NR4A3, RET, FUS
 GO:0045893 17 / 778 5.1× 2.47e-8 3.88e-6 ✓ sig.
regulation of cell cycle
TFDP2, RB1, ABL1, CDK12, TP53, STK11, CDKN2A, HRAS, PTEN
 GO:0051726 9 / 262 8.0× 1.78e-6 1.38e-4 ✓ sig.
regulation of G1/S transition of mitotic cell cycle
RB1, BCL7A, SMARCB1, ARID1A, CDKN2A
 GO:2000045 5 / 57 20.5× 4.46e-6 2.89e-4 ✓ sig.
epidermal growth factor receptor signaling pathway
PTPN11, ABL1, EGFR, BRAF, PIK3CA
 GO:0007173 5 / 64 18.2× 7.93e-6 4.55e-4 ✓ sig.
cAMP/PKA signal transduction
CREB1, ADCYAP1R1, GHRHR
 GO:0141156 3 / 10 70.1× 8.87e-6 4.95e-4 ✓ sig.
learning or memory
GRIN2A, ABL1, B2M, EGFR, PTEN
 GO:0007611 5 / 72 16.2× 1.42e-5 7.13e-4 ✓ sig.
negative regulation of DNA-templated transcription
DACH1, TFDP2, ZNF438, RB1, SOX6, IKZF1, TP53, FOXP1, BCL7A, KDM5C, CDKN2A, FOXO1
 GO:0045892 12 / 631 4.4× 1.46e-5 7.30e-4 ✓ sig.
positive regulation of hormone secretion
CREB1, GHRHR, PTPN11
 GO:0046887 3 / 12 58.4× 1.62e-5 7.89e-4 ✓ sig.
regulation of cell population proliferation
ABL1, TP53, EGFR, KIT, BRAF, HRAS, FOXO1
 GO:0042127 7 / 201 8.1× 2.45e-5 1.08e-3 ✓ sig.
replicative senescence
CHEK2, TP53, CDKN2A
 GO:0090399 3 / 16 43.8× 4.06e-5 1.57e-3 ✓ sig.
positive regulation of Schwann cell differentiation
EGR2, DICER1
 GO:0014040 2 / 3 156× 5.41e-5 1.96e-3 ✓ sig.
regulation of centromere complex assembly
RB1, H3-3A
 GO:0090230 2 / 3 156× 5.41e-5 1.96e-3 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Ewing sarcoma Skeletal ewing sarcoma 0.333 4 4.38e-13 4.82e-12 ✓ sig.
Askin tumor Spindle cell sarcoma 0.286 4 1.03e-12 1.11e-11 ✓ sig.
Cavernous hemangioma Extraskeletal ewing sarcoma 0.600 3 6.46e-12 6.55e-11 ✓ sig.
Askin tumor Cavernous hemangioma 0.500 3 1.62e-11 1.61e-10 ✓ sig.
Cavernous hemangioma Osteochondroma 0.500 3 1.62e-11 1.61e-10 ✓ sig.
Cavernous hemangioma Skeletal ewing sarcoma 0.500 3 1.62e-11 1.61e-10 ✓ sig.
Cavernous hemangioma Ectomesenchymoma 0.429 3 3.23e-11 3.15e-10 ✓ sig.
Askin tumor Extraskeletal ewing sarcoma 0.429 3 6.46e-11 6.13e-10 ✓ sig.
Extraskeletal ewing sarcoma Skeletal ewing sarcoma 0.429 3 6.46e-11 6.13e-10 ✓ sig.
Extraskeletal ewing sarcoma Osteochondroma 0.429 3 6.46e-11 6.13e-10 ✓ sig.
Cavernous hemangioma Hematopoietic and lymphoid cell neoplasm 0.333 3 9.05e-11 8.46e-10 ✓ sig.
Ectomesenchymoma Extraskeletal ewing sarcoma 0.375 3 1.29e-10 1.20e-9 ✓ sig.
Hematopoietic and lymphoid cell neoplasm Osteogenic sarcoma 0.160 4 1.41e-10 1.30e-9 ✓ sig.
Askin tumor Skeletal ewing sarcoma 0.375 3 1.61e-10 1.48e-9 ✓ sig.
Askin tumor Osteochondroma 0.375 3 1.61e-10 1.48e-9 ✓ sig.
Osteochondroma Skeletal ewing sarcoma 0.375 3 1.61e-10 1.48e-9 ✓ sig.
Cavernous hemangioma Ewing sarcoma 0.273 3 1.94e-10 1.78e-9 ✓ sig.
Askin tumor Ectomesenchymoma 0.333 3 3.23e-10 2.90e-9 ✓ sig.
Ectomesenchymoma Skeletal ewing sarcoma 0.333 3 3.23e-10 2.90e-9 ✓ sig.
Ectomesenchymoma Osteochondroma 0.333 3 3.23e-10 2.90e-9 ✓ sig.
Cavernous hemangioma Spindle cell sarcoma 0.231 3 3.55e-10 3.18e-9 ✓ sig.
Extraskeletal ewing sarcoma Hematopoietic and lymphoid cell neoplasm 0.300 3 3.62e-10 3.23e-9 ✓ sig.
Ewing sarcoma Extraskeletal ewing sarcoma 0.250 3 7.75e-10 6.76e-9 ✓ sig.
Hematopoietic and lymphoid cell neoplasm Skeletal ewing sarcoma 0.273 3 9.04e-10 7.84e-9 ✓ sig.
Hematopoietic and lymphoid cell neoplasm Osteochondroma 0.273 3 9.04e-10 7.84e-9 ✓ sig.
Askin tumor Hematopoietic and lymphoid cell neoplasm 0.273 3 9.04e-10 7.84e-9 ✓ sig.
Extraskeletal ewing sarcoma Spindle cell sarcoma 0.214 3 1.42e-9 1.22e-8 ✓ sig.
Cavernous hemangioma Osteogenic sarcoma 0.143 3 1.84e-9 1.56e-8 ✓ sig.
Ewing sarcoma Osteochondroma 0.231 3 1.94e-9 1.63e-8 ✓ sig.
Askin tumor Ewing sarcoma 0.231 3 1.94e-9 1.63e-8 ✓ sig.
Osteochondroma Spindle cell sarcoma 0.200 3 3.55e-9 2.94e-8 ✓ sig.
Skeletal ewing sarcoma Spindle cell sarcoma 0.200 3 3.55e-9 2.94e-8 ✓ sig.
Extraskeletal ewing sarcoma Osteogenic sarcoma 0.136 3 7.36e-9 5.96e-8 ✓ sig.
Osteogenic sarcoma Skeletal ewing sarcoma 0.130 3 1.84e-8 1.42e-7 ✓ sig.
Cavernous hemangioma Pineoblastoma 0.250 2 3.75e-7 2.42e-6 ✓ sig.
Extraskeletal ewing sarcoma Pineoblastoma 0.222 2 7.50e-7 4.63e-6 ✓ sig.
Askin tumor Pineoblastoma 0.200 2 1.25e-6 7.51e-6 ✓ sig.
Pineoblastoma Skeletal ewing sarcoma 0.200 2 1.25e-6 7.51e-6 ✓ sig.
Osteochondroma Pineoblastoma 0.200 2 1.25e-6 7.51e-6 ✓ sig.
Bleeding disorder, platelet-type, 21 Paris-trousseau thrombocytopenia 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Benign fibrous histiocytoma Bleeding disorder, platelet-type, 21 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Benign fibrous histiocytoma Paris-trousseau thrombocytopenia 0.500 1 6.46e-5 1.98e-4 ✓ sig.
Bleeding disorder, platelet-type, 21 Cavernous hemangioma 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Benign fibrous histiocytoma Cavernous hemangioma 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Cavernous hemangioma Paris-trousseau thrombocytopenia 0.250 1 1.94e-4 4.41e-4 ✓ sig.
Bleeding disorder, platelet-type, 21 Extraskeletal ewing sarcoma 0.200 1 2.58e-4 5.38e-4 ✓ sig.
Extraskeletal ewing sarcoma Paris-trousseau thrombocytopenia 0.200 1 2.58e-4 5.38e-4 ✓ sig.
Benign fibrous histiocytoma Extraskeletal ewing sarcoma 0.200 1 2.58e-4 5.38e-4 ✓ sig.
Osteochondroma Tolchin-le caignec syndrome 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Paris-trousseau thrombocytopenia Skeletal ewing sarcoma 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Bleeding disorder, platelet-type, 21 Skeletal ewing sarcoma 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Benign fibrous histiocytoma Skeletal ewing sarcoma 0.167 1 3.23e-4 6.41e-4 ✓ sig.
Angiomatoid fibrous histiocytoma Cavernous hemangioma 0.200 1 3.87e-4 7.33e-4 ✓ sig.
Angiomatoid fibrous histiocytoma Extraskeletal ewing sarcoma 0.167 1 5.16e-4 9.13e-4 ✓ sig.
Benign fibrous histiocytoma Congenital left-sided heart lesions 0.038 1 1.61e-3 2.26e-3 ✓ sig.
Bleeding disorder, platelet-type, 21 Congenital left-sided heart lesions 0.038 1 1.61e-3 2.26e-3 ✓ sig.
Congenital left-sided heart lesions Paris-trousseau thrombocytopenia 0.038 1 1.61e-3 2.26e-3 ✓ sig.