Evidence map›Paper›PMID 40156864›Full record

ArticleNucleic acids research2025

Mechanism-based approach in designing patient-specific combination therapies for nonsense mutation diseases.

Saleem Y Bhat, Arpan Bhattacharya, Hong Li, Xiaonan Cui, John D Lueck, Yale E Goldman, Barry S Cooperman

Abstract read
In one paragraph

Article in Nucleic acids research, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. RNAViruses · 2026
    Review
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors.

Saleem Y BhatDepartment of Chemistry, University of Pennsylvania, Philadelphia, PA 19104, United States.
Arpan BhattacharyaDepartment of Chemistry, University of Pennsylvania, Philadelphia, PA 19104, United States.
Hong LiDepartment of Chemistry, University of Pennsylvania, Philadelphia, PA 19104, United States.
Xiaonan CuiDepartment of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, United States.
John D LueckDepartment of Pharmacology and Physiology, University of Rochester School of Medicine and Dentistry, Rochester, NY 14642, United States.ORCID 0000-0002-1820-711X
Yale E GoldmanDepartment of Physiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, United States.
Barry S CoopermanDepartment of Chemistry, University of Pennsylvania, Philadelphia, PA 19104, United States.ORCID 0000-0001-6989-9788

Funding

Supplemental Application linked to parent grant Structural Dynamics of Molecular Motors, the Cytoskeleton, and the RibosomeR35GM118139 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI YALE E GOLDMAN · 2016 to 2026
$8.3M
In vivo delivery of engineered tRNAs for suppression of nonsense mutationsR01HL153988 · NHLBI · UNIVERSITY OF ROCHESTER · PI John D. Lueck · 2021 to 2026
$3.4M
Catalytic roles of RNA methyltransferase DIMT1R01HL160726 · NHLBI · UNIVERSITY OF PENNSYLVANIA · PI COOPERMAN, BARRY S., LIU, FANGE · 2022 to 2025
$2.4M
Mechanisms of Induced Nonsense Suppression and MisreadingR01GM127374 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI BARRY S. COOPERMAN · 2018 to 2026
$2.3M
Cystic Fibrosis Foundation COOPER23G0NHLBI NIH HHS R01 HL153988NHLBI NIH HHS R01 HL160726NIGMS NIH HHS R01 GM127374NIGMS NIH HHS R35 GM118139NIH HHS RO1GM127374
6 · The paper itself

Abstract

Premature termination codon (PTC) diseases account for ∼12% of all human disease mutations. Although there are no FDA approved treatments for increasing PTC readthrough, one readthrough inducing drug, ataluren, has conditional approval for treatment of Duchenne muscular dystrophy elsewhere. Ataluren displays low toxicity in clinical trials for treatment of PTC diseases, but its therapeutic effects are inconsistent. The messenger RNA (mRNA) sequence context of a PTC is a major determinant of PTC readthrough efficiency. We have shown that ataluren stimulates readthrough exclusively by competitively inhibiting release factor complex (RFC) catalysis of translation termination. Here, using an in vitro reconstituted system, we demonstrate that PTC identity and the immediately adjacent mRNA sequence contexts modulate RFC activity in terminating peptide elongation. Such modulation largely determines the effectiveness of ataluren in stimulating readthrough, whether added alone or in combination with either the aminoglycoside G418 or an anticodon edited aa-tRNA, which stimulate readthrough by mechanisms orthogonal to that of ataluren. Our results suggest a potential rationale for the variability of ataluren effectiveness in stimulating readthrough. We hypothesize that patients harboring a PTC mutation within a sequence context promoting strong interaction with RFC will be resistant to ataluren, but that ataluren treatment will be more effective for patient sequences conferring weaker interaction with RFC.

Indexed as

Codon, NonsenseOxadiazolesGentamicinsHumansMuscular Dystrophy, DuchennePeptide Chain Termination, TranslationalPeptide Termination FactorsPrecision MedicineRNA, Messengerantibiotic G 418atalurenCodon, NonsenseGentamicinsOxadiazolesPeptide Termination FactorsRNA, Messenger

Identifiers

PMID40156864
PMCPMC11954524

What OpenQuestion holds

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LicenceCC BY
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Registered trials

None linked

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.