Evidence map›Paper›PMID 38885312›Full record

ArticleCancer research2024

Single-Stranded DNA Gap Accumulation Is a Functional Biomarker for USP1 Inhibitor Sensitivity.

Alexandre A da Costa, Ozge Somuncu, Ramya Ravindranathan, Sirisha Mukkavalli, David B Martignetti, Huy Nguyen, Yuqing Jiao, Benjamin P Lamarre, Golbahar Sadatrezaei, Lisa Moreau and 6 more

Abstract read
In one paragraph

Article in Cancer research, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.

0numbers the graph read from it
0cells of the map it votes in
23citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

23 citing papers in PubMed.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Article
  6. Targeting IPNature communications · 2026
    Article
  7. Review
  8. Article
  9. Article
  10. Article
  11. Article
  12. The 9-1-1 complex protects ssDNA gaps in BRCA2-deficient cancer.bioRxiv : the preprint server for biology · 2025
    Article
  13. Article
  14. Review
  15. Review
  16. Article
  17. Article
  18. Article
  19. Review
  20. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

16 authors.

Alexandre A da CostaCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0002-1631-0105
Ozge SomuncuCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0002-0841-8263
Ramya RavindranathanCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0001-7880-8593
Sirisha MukkavalliCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0002-8875-7985
David B MartignettiCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0009-0000-7941-5433
Huy NguyenCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0002-4424-1047
Yuqing JiaoCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0009-0005-4257-4867
Benjamin P LamarreCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0009-0009-7944-3851
Golbahar SadatrezaeiCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0009-0006-6761-7816
Lisa MoreauCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0003-2985-0415
Joyce LiuDepartment of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0003-3888-3972
Divya R IyerDepartment of Radiation Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0002-2306-052X
Jean-Bernard LazaroCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0002-9417-3388
Geoffrey I ShapiroCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0002-3331-4095
Kalindi ParmarCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0002-9522-1716
Alan D D'AndreaCenter for DNA Damage and Repair, Dana-Farber Cancer Institute, Boston, Massachusetts.ORCID 0000-0001-6168-6294

Funding

Xenograft CoreP01HL048546 · NHLBI · OREGON HEALTH & SCIENCE UNIVERSITY · PI GROMPE, MARKUS · 1994 to 2020
$36.4M
Tissue and Pathology CoreP50CA168504 · NCI · DANA-FARBER CANCER INST · PI Nabihah Tayob · 2013 to 2026
$30.1M
Project 2: Combined personal neoantigen-targeting cancer vaccines with immune checkpoint blockade for ovarian cancerP50CA240243 · NCI · DANA-FARBER CANCER INST · PI CASTRO, CESAR M · 2020 to 2024
$11.5M
MOLECULAR PATHOGENESIS OF FANCONI ANEMIAR01HL052725 · NHLBI · DANA-FARBER CANCER INSTITUTE · PI ALAN D. D'ANDREA · 1994 to 2026
$5.9M
National Institutes of Health (NIH) R01HL052725NCI NIH HHS P50 CA168504NCI NIH HHS P50 CA240243NHLBI NIH HHS P01 HL048546NHLBI NIH HHS R01 HL052725U.S. Department of Defense (DOD) BM110181
6 · The paper itself

Abstract

Recent studies suggest that PARP and POLQ inhibitors confer synthetic lethality in BRCA1-deficient tumors by accumulation of single-stranded DNA (ssDNA) gaps at replication forks. Loss of USP1, a deubiquitinating enzyme, is also synthetically lethal with BRCA1 deficiency, and USP1 inhibitors are now undergoing clinical development for these cancers. Herein, we show that USP1 inhibitors also promote the accumulation of ssDNA gaps during replication in BRCA1-deficient cells, and this phenotype correlates with drug sensitivity. USP1 inhibition increased monoubiquitinated proliferating cell nuclear antigen at replication forks, mediated by the ubiquitin ligase RAD18, and knockdown of RAD18 caused USP1 inhibitor resistance and suppression of ssDNA gaps. USP1 inhibition overcame PARP inhibitor resistance in a BRCA1-mutated xenograft model and induced ssDNA gaps. Furthermore, USP1 inhibition was synergistic with PARP and POLQ inhibition in BRCA1-mutant cells, with enhanced ssDNA gap accumulation. Finally, in patient-derived ovarian tumor organoids, sensitivity to USP1 inhibition alone or in combination correlated with the accumulation of ssDNA gaps. Assessment of ssDNA gaps in ovarian tumor organoids represents a rapid approach for predicting response to USP1 inhibition in ongoing clinical trials. Significance: USP1 inhibitors kill BRCA1-deficient cells and cause ssDNA gap accumulation, supporting the potential of using ssDNA gap detection as a functional biomarker for clinical trials on USP1 inhibitors.

Indexed as

DNA, Single-StrandedOvarian NeoplasmsUbiquitin-Specific ProteasesAnimalsBiomarkers, TumorBRCA1 ProteinCell Line, TumorDNA ReplicationDrug Resistance, NeoplasmFemaleHumansMicePoly(ADP-ribose) Polymerase InhibitorsXenograft Model Antitumor AssaysBiomarkers, TumorBRCA1 ProteinBRCA1 protein, humanDNA, Single-StrandedPoly(ADP-ribose) Polymerase InhibitorsUbiquitin-Specific ProteasesUSP1 protein, human

Identifiers

PMID38885312
PMCPMC11474172

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.