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.

← Back to all clusters

Cluster 129

10 diseases · 16 shared-gene connections
10 Diseases
66 Unique genes
0.094 Avg. similarity score
Fanconi anemia Most-connected disease (6 links)
Log in to save this analysis

Save This Analysis

Disease Searched: Fanconi anemia complementation group U 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 ⇵
Fanconi anemia 6 6 39
Hereditary breast and ovarian cancer syndrome 6 6 15
Hereditary breast cancer 6 6 32
Hereditary breast-ovarian cancer syndrome 3 3 5
BARD1-related cancer predisposition 2 2 1
Fanconi anemia complementation group U 2 2 1
RAD51D-related cancer predisposition 2 2 1
fanconi anemia complementation group p 2 2 1
nijmegen breakage syndrome 2 2 1
fanconi anemia complementation group f 1 1 1

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

Gene ⇵ Member diseases ⇵ Linked diseases
BRCA1 4 / 10 Fanconi anemia, Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer, Hereditary breast-ovarian cancer syndrome
BRCA2 4 / 10 Fanconi anemia, Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer, Hereditary breast-ovarian cancer syndrome
PALB2 4 / 10 Fanconi anemia, Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer, Hereditary breast-ovarian cancer syndrome
BARD1 3 / 10 BARD1-related cancer predisposition, Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer
BRIP1 3 / 10 Fanconi anemia, Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer
NBN 3 / 10 Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer, nijmegen breakage syndrome
RAD51 3 / 10 Fanconi anemia, Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer
RAD51C 3 / 10 Fanconi anemia, Hereditary breast and ovarian cancer syndrome, Hereditary breast-ovarian cancer syndrome
RAD51D 3 / 10 Hereditary breast and ovarian cancer syndrome, Hereditary breast-ovarian cancer syndrome, RAD51D-related cancer predisposition
SLX4 3 / 10 Fanconi anemia, fanconi anemia complementation group p, Hereditary breast cancer
XRCC2 3 / 10 Fanconi anemia, Fanconi anemia complementation group U, Hereditary breast cancer
ATM 2 / 10 Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer
CHEK2 2 / 10 Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer
FANCF 2 / 10 Fanconi anemia, fanconi anemia complementation group f
FANCM 2 / 10 Fanconi anemia, Hereditary breast cancer
MRE11 2 / 10 Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer
RAD50 2 / 10 Hereditary breast and ovarian cancer syndrome, Hereditary breast cancer
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 ⇵
Fanconi anemia pathway
BRCA1, BRCA2, RAD51C, PALB2, FANCM, BRIP1, ERCC4, FAAP100, FANCA, FANCB, FANCC, FANCD2
 KEGG 23 / 54 77.5× 1.33e-39 8.68e-36 ✓ sig.
Fanconi Anemia Pathway
FANCM, ERCC4, FAAP100, FANCA, FANCB, FANCC, FANCD2, FANCE, FANCF, FANCG, FANCI, FANCL
 Reactome 16 / 40 72.8× 5.52e-27 1.11e-23 ✓ sig.
Resolution of D-loop Structures through Holliday Junction Intermediates
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, BRIP1, RAD51, SLX4, XRCC2, ATM, BARD1, MRE11
 Reactome 15 / 33 82.7× 2.19e-26 3.92e-23 ✓ sig.
Homologous DNA Pairing and Strand Exchange
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, BRIP1, RAD51, XRCC2, ATM, BARD1, MRE11, NBN
 Reactome 13 / 25 94.6× 5.87e-24 8.14e-21 ✓ sig.
Resolution of D-loop Structures through Synthesis-Dependent Strand Annealing (SDSA)
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, BRIP1, RAD51, XRCC2, ATM, BARD1, MRE11, NBN
 Reactome 13 / 26 91.0× 1.17e-23 1.47e-20 ✓ sig.
Homologous recombination
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, BRIP1, RAD51, XRCC2, ATM, BARD1, MRE11, NBN
 KEGG 14 / 41 62.1× 1.65e-22 1.80e-19 ✓ sig.
Presynaptic phase of homologous DNA pairing and strand exchange
BRCA1, BRCA2, RAD51C, RAD51D, BRIP1, RAD51, XRCC2, ATM, BARD1, MRE11, NBN, RAD50
 Reactome 13 / 39 60.7× 8.65e-21 6.95e-18 ✓ sig.
HDR through Homologous Recombination (HRR)
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, BRIP1, RAD51, XRCC2, ATM, BARD1, MRE11, NBN
 Reactome 13 / 48 49.3× 1.98e-19 1.32e-16 ✓ sig.
HDR through Single Strand Annealing (SSA)
BRCA1, BRIP1, ERCC4, RAD51, ATM, BARD1, MRE11, NBN, RAD50, ATRIP
 Reactome 10 / 37 49.2× 3.82e-15 1.19e-12 ✓ sig.
TP53 Regulates Transcription of DNA Repair Genes
BRCA1, RAD51D, FANCC, FANCD2, FANCI, ATM, TP53, CDK9, MLH1, MSH2, PMS2
 Reactome 11 / 65 30.8× 4.09e-14 1.03e-11 ✓ sig.
G2/M DNA damage checkpoint
BRCA1, BRIP1, ATM, BARD1, CHEK2, MRE11, NBN, RAD50, TP53, ATRIP
 Reactome 10 / 84 21.7× 2.48e-11 3.80e-9 ✓ sig.
Regulation of TP53 Activity through Phosphorylation
BRCA1, BRIP1, ATM, BARD1, CHEK2, MRE11, NBN, RAD50, TP53, ATRIP
 Reactome 10 / 92 19.8× 6.26e-11 8.81e-9 ✓ sig.
Platinum drug resistance
BRCA1, GSTM1, GSTT1, ATM, TP53, MLH1, MSH2, MSH6, PIK3CA
 KEGG 9 / 75 21.8× 2.45e-10 3.04e-8 ✓ sig.
Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
BRCA1, ATM, BARD1, CHEK2, MRE11, NBN, RAD50, TP53
 Reactome 8 / 76 19.2× 7.54e-9 6.44e-7 ✓ sig.
Sensing of DNA Double Strand Breaks
ATM, MRE11, NBN, RAD50
 Reactome 4 / 6 121× 1.24e-8 9.89e-7 ✓ 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 ⇵
DNA repair
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, FANCM, BRIP1, ERCC4, FAAP100, FANCA, FANCB, FANCC
 GO:0006281 43 / 420 29.0× 3.31e-55 8.99e-51 ✓ sig.
DNA damage response
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, FANCM, BRIP1, ERCC4, FAAP100, FANCA, FANCB, FANCC
 GO:0006974 43 / 577 21.1× 4.33e-49 8.49e-45 ✓ sig.
interstrand cross-link repair
RAD51D, FANCM, BRIP1, FAAP100, FANCA, FANCB, FANCC, FANCD2, FANCE, FANCF, FANCG, FANCI
 GO:0036297 17 / 39 123× 1.05e-32 7.58e-29 ✓ sig.
double-strand break repair via homologous recombination
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, ERCC4, RAD51, RFWD3, SLX4, XRCC2, ATM, MRE11
 GO:0000724 17 / 119 40.4× 2.76e-23 7.21e-20 ✓ sig.
double-strand break repair
BRCA1, BRCA2, BRIP1, MAD2L2, VCP, ATM, CHEK2, MRE11, NBN, RAD50, TP53, RAD54L
 GO:0006302 13 / 87 42.3× 3.18e-18 3.82e-15 ✓ sig.
DNA recombination
BRCA1, BRCA2, RAD51C, RAD51D, PALB2, RAD51, SLX4, XRCC2, MRE11, RAD50, RAD54L, GEN1
 GO:0006310 13 / 110 33.5× 7.74e-17 7.46e-14 ✓ sig.
homologous recombination
BRCA1, FANCM, BRIP1, BARD1, MRE11, NBN, RAD50
 GO:0035825 7 / 12 165× 3.86e-15 2.69e-12 ✓ sig.
reciprocal meiotic recombination
RAD51C, RAD51D, RAD51, ATM, MRE11, RAD50, RAD54L, MLH1
 GO:0007131 8 / 33 68.6× 2.02e-13 1.04e-10 ✓ sig.
DNA strand resection involved in replication fork processing
BRCA1, ATM, BARD1, MRE11, NBN, RAD50
 GO:0110025 6 / 14 121× 4.52e-12 1.78e-9 ✓ sig.
intrinsic apoptotic signaling pathway in response to DNA damage
BRCA1, BRCA2, TNF, ATM, CHEK2, MLH1, MSH2, MSH6
 GO:0008630 8 / 54 41.9× 1.43e-11 5.11e-9 ✓ sig.
replication fork processing
BRCA2, FANCM, RAD51, RFWD3, CDK9, GEN1, RECQL
 GO:0031297 7 / 41 48.3× 1.01e-10 2.97e-8 ✓ sig.
telomeric 3' overhang formation
DCLRE1B, MRE11, NBN, RAD50
 GO:0031860 4 / 4 283× 1.42e-10 4.03e-8 ✓ sig.
telomere maintenance via recombination
BRCA2, RAD51C, RAD51D, RAD51, RAD50
 GO:0000722 5 / 11 129× 2.14e-10 5.81e-8 ✓ sig.
regulation of DNA damage checkpoint
BRCA1, BRCA2, RAD51, RFWD3, BARD1
 GO:2000001 5 / 15 94.4× 1.38e-9 2.96e-7 ✓ sig.
somatic recombination of immunoglobulin gene segments
MLH1, MSH2, MSH6, PMS2
 GO:0016447 4 / 6 189× 2.12e-9 4.34e-7 ✓ sig.

Pairs within this cluster, by significance

Disease A ⇵ Disease B ⇵ Similarity score ⇵ Shared genes ⇵ P-value ⇵ FDR q-value ⇵
Hereditary breast and ovarian cancer syndrome Hereditary breast cancer 0.297 11 6.08e-28 1.72e-26 ✓ sig.
Hereditary breast and ovarian cancer syndrome Hereditary breast-ovarian cancer syndrome 0.313 5 4.17e-16 6.40e-15 ✓ sig.
Fanconi anemia Hereditary breast cancer 0.125 8 7.92e-15 1.12e-13 ✓ sig.
Fanconi anemia Hereditary breast and ovarian cancer syndrome 0.122 6 8.68e-13 1.06e-11 ✓ sig.
Fanconi anemia Hereditary breast-ovarian cancer syndrome 0.098 4 1.75e-10 1.71e-9 ✓ sig.
Hereditary breast-ovarian cancer syndrome RAD51D-related cancer predisposition 0.167 1 3.25e-4 7.70e-4 ✓ sig.
BARD1-related cancer predisposition Hereditary breast and ovarian cancer syndrome 0.063 1 9.74e-4 1.66e-3 ✓ sig.
Hereditary breast and ovarian cancer syndrome nijmegen breakage syndrome 0.063 1 9.74e-4 1.66e-3 ✓ sig.
Hereditary breast and ovarian cancer syndrome RAD51D-related cancer predisposition 0.063 1 9.74e-4 1.66e-3 ✓ sig.
BARD1-related cancer predisposition Hereditary breast cancer 0.030 1 2.08e-3 2.97e-3 ✓ sig.
fanconi anemia complementation group p Hereditary breast cancer 0.030 1 2.08e-3 2.97e-3 ✓ sig.
Fanconi anemia complementation group U Hereditary breast cancer 0.030 1 2.08e-3 2.97e-3 ✓ sig.
Hereditary breast cancer nijmegen breakage syndrome 0.030 1 2.08e-3 2.97e-3 ✓ sig.
Fanconi anemia fanconi anemia complementation group f 0.025 1 2.53e-3 3.45e-3 ✓ sig.
Fanconi anemia fanconi anemia complementation group p 0.025 1 2.53e-3 3.45e-3 ✓ sig.
Fanconi anemia Fanconi anemia complementation group U 0.025 1 2.53e-3 3.45e-3 ✓ sig.