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Pathophysiology Nodes

5
5 shared nodes are defined in this module.
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Cell Types

0
No cell types are annotated for this module.
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Biological Processes

7
double-strand break repair via homologous recombination GO:0000724 ↓ DECREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves decreased double-strand break repair via homologous recombination (GO:0000724). GO:0000724 is a biological process from the Gene Ontology. interstrand cross-link repair GO:0036297 ↓ DECREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves decreased interstrand cross-link repair (GO:0036297). GO:0036297 is a biological process from the Gene Ontology. single strand break repair GO:0000012 ↕ DYSREGULATED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves dysregulated single strand break repair (GO:0000012). GO:0000012 is a biological process from the Gene Ontology. DNA damage response GO:0006974 ↑ INCREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves increased DNA damage response (GO:0006974). GO:0006974 is a biological process from the Gene Ontology. single strand break repair GO:0000012 ↓ DECREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves decreased single strand break repair (GO:0000012). GO:0000012 is a biological process from the Gene Ontology. alternative end joining GO:0097681 ↑ INCREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves increased alternative end joining (GO:0097681). GO:0097681 is a biological process from the Gene Ontology. double-strand break repair via homologous recombination GO:0000724 ↑ INCREASED Gene Ontology (GO) Relation: this mechanism module involves this biological process This mechanism module involves increased double-strand break repair via homologous recombination (GO:0000724). GO:0000724 is a biological process from the Gene Ontology.
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Notes

This is a mechanism module, not a specific disease. Disorder entries reference individual nodes via conforms_to (for example, "dna_repair_synthetic_lethality#PARP and Platinum Synthetic Lethality"). The module is intended for BRCA1/2-mutant, PALB2-mutant, HRD-positive, and related FA/BRCA-deficient cancers, including ovarian, breast, prostate, pancreatic, and selected DNA-repair-deficient tumors. Treatments such as PARP inhibitors and platinum chemotherapy should use target_mechanisms to connect to the synthetic-lethality node when the disorder entry represents that therapeutic vulnerability. Acquired resistance nodes can conform to the POLQ/error-prone repair or restored-HRR nodes when supported by tumor-specific evidence.
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Used By Disorder Entries

4
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Pathograph

Use the checkboxes to hide or show graph categories. Hover nodes for evidence-backed metadata.
Pathograph: causal mechanism network for DNA Repair Synthetic Lethality Module Interactive directed graph showing how this shared module's pathophysiology nodes connect.
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Pathophysiology

5
HRR or FA/BRCA Repair Deficiency
trigger
Loss of BRCA1, BRCA2, PALB2, RAD51 paralogs, or other FA/BRCA pathway components impairs high-fidelity homologous recombination repair. This creates the initiating repair-deficient state that drives genomic instability and makes the tumor dependent on backup DNA repair processes.
double-strand break repair via homologous recombination GO:0000724 ↓ DECREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves decreased double-strand break repair via homologous recombination (GO:0000724). GO:0000724 is a biological process from the Gene Ontology. interstrand cross-link repair GO:0036297 ↓ DECREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves decreased interstrand cross-link repair (GO:0036297). GO:0036297 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:27749330 SUPPORT Other
"Poly(ADP-ribose) polymerase (PARP) inhibitors have been developed as an anticancer synthetic lethal therapeutic strategy for tumors with impaired homologous recombination DNA repair, based on a synthetic lethal effect."
Review evidence establishes impaired homologous recombination DNA repair as the repair-deficient state that creates PARP-inhibitor synthetic lethality.
PMID:31130988 SUPPORT Computational
"The Fanconi anemia (FA) pathway repairs DNA interstrand crosslinks (ICLs), and deficiencies in this pathway cause a fraction of breast and ovarian cancers as well as FA, a chromosome instability syndrome characterized by bone marrow failure and cancer predisposition."
The FA-CHKREC Boolean network paper summarizes the FA/BRCA pathway as an interstrand-crosslink repair system whose deficiency contributes to cancer and chromosomal instability.
Replication-Associated DNA Damage Accumulation
amplifier
PARP-dependent single-strand break repair, interstrand-crosslink repair, and RAD51-mediated homologous recombination converge at stressed replication forks. When HRR or FA/BRCA repair is deficient, single-strand breaks, interstrand crosslinks, and stalled forks generate persistent DNA damage and replication-fork collapse.
single strand break repair GO:0000012 ↕ DYSREGULATED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves dysregulated single strand break repair (GO:0000012). GO:0000012 is a biological process from the Gene Ontology. DNA damage response GO:0006974 ↑ INCREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves increased DNA damage response (GO:0006974). GO:0006974 is a biological process from the Gene Ontology.
replication fork GO:0005657 Gene Ontology (GO) Relation: this pathophysiological event involves this cellular component This pathophysiological event involves replication fork (GO:0005657). GO:0005657 is a cellular component from the Gene Ontology.
Show evidence (2 references)
PMID:33475295 SUPPORT Other
"Poly(ADP-ribose) polymerase (PARP) is involved in single-strand DNA break base excision repair."
Review evidence supports PARP-dependent single-strand break repair as a repair process whose inhibition becomes consequential in HRR-deficient cells.
PMID:23401855 SUPPORT In Vitro
"Consistent with a role in the repair of ICLs by homologous recombination (HR), knockdown of MCM8 or MCM9 significantly reduces HR repair efficiency."
Cell-based experiments link interstrand-crosslink repair to homologous recombination efficiency and RAD51 recruitment at DNA damage sites.
PARP and Platinum Synthetic Lethality
therapeutic vulnerability
In HRR-deficient tumor cells, PARP inhibition blocks single-strand break repair and can convert unresolved lesions into double-strand breaks that cannot be repaired faithfully. Platinum agents add crosslinking lesions that similarly stress HRR and FA/BRCA repair. The combined logic is synthetic lethality: a tumor-specific repair defect converts otherwise tolerable DNA damage into selective tumor-cell death.
single strand break repair GO:0000012 ↓ DECREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves decreased single strand break repair (GO:0000012). GO:0000012 is a biological process from the Gene Ontology. double-strand break repair via homologous recombination GO:0000724 ↓ DECREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves decreased double-strand break repair via homologous recombination (GO:0000724). GO:0000724 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:33475295 SUPPORT Other
"PARP inhibition causes synthetic lethality in breast cancers associated with germline BRCA1 and BRCA2 mutations and is routinely used in clinical practice for metastatic breast cancer."
Review evidence directly supports the synthetic-lethal relationship between PARP inhibition and BRCA-associated HRR deficiency.
"BC resulting from a germline BRCAm (gBRCAm) has distinct clinical characteristics along with increased sensitivity to DNA-damaging agents such as poly(ADP-ribose) polymerase (PARP) inhibitors and platinum-based chemotherapies, and potentially decreased sensitivity to cyclin-dependent kinase 4..."
Review evidence supports the broader therapeutic-vulnerability pattern: germline BRCA-mutated breast cancers show sensitivity to both PARP inhibitors and platinum-based chemotherapy.
Error-Prone End Joining and POLQ-Mediated Repair
adaptive escape
When canonical HRR or FA/BRCA repair is impaired, tumor cells can rely on alternative end-joining and microhomology-mediated repair. POLQ-associated repair can generate frameshift deletion-mediated reversion events under PARP-inhibitor or platinum pressure, creating a route toward acquired resistance.
alternative end joining GO:0097681 ↑ INCREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves increased alternative end joining, annotated with double-strand break repair via alternative nonhomologous end joining (GO:0097681). GO:0097681 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:39577422 SUPPORT Human Clinical
"Among reversions mediated by frameshift deletions, 60% are flanked by DNA microhomologies, implicating POLQ-mediated repair."
TOPARP-B resistance analysis connects microhomology-flanked reversion events to POLQ-mediated repair in metastatic prostate cancer treated with PARP inhibition.
PMID:31130988 SUPPORT Computational
"Several tumors are deficient in the FA pathway, including high-grade ovarian carcinomas, triple negative breast cancers and metastatic prostate cancer (Ceccaldi, 2015), which can be compensated by activation of alternative DNA repair pathways, such as DNA polymerase -PARP1-mediated..."
The FA-CHKREC model paper supports alternative end joining as a backup repair route in FA/BRCA-deficient tumor contexts.
Restored HRR and Acquired Resistance
consequence
Resistant tumor subclones can acquire BRCA1, BRCA2, or PALB2 reversion mutations that restore open reading frames or otherwise restore HRR function. Once HRR is restored, PARP inhibitor or platinum sensitivity is reduced and the original synthetic-lethal relationship is weakened.
double-strand break repair via homologous recombination GO:0000724 ↑ INCREASED Gene Ontology (GO) Relation: this pathophysiological event involves this biological process This pathophysiological event involves increased double-strand break repair via homologous recombination (GO:0000724). GO:0000724 is a biological process from the Gene Ontology.
Show evidence (2 references)
PMID:36243543 SUPPORT Human Clinical
"No baseline BRCA reversion mutations were observed in 100 BRCA+ patients. NGS identified somatic BRCA reversion mutations in 39% (39/100) of patients after progression."
TRITON2 post-progression plasma analysis documents acquired BRCA reversion mutations after rucaparib treatment.
PMID:39577422 SUPPORT Human Clinical
"These data support the need for restored HRR function in PARPi resistance."
TOPARP-B resistance analysis directly supports restored homologous recombination repair as a requirement for PARP-inhibitor resistance.