Evidence map›Paper›PMID 39281879›Full record

ArticleResearch square2024

Inhibition of novel human-HPV hybrid ecDNA enhancers reduces oncogene expression and tumor growth in oropharyngeal cancer.

Takuya Nakagawa, Jens Luebeck, Kaiyuan Zhu, Joshua T Lange, Roman Sasik, Chad Phillips, Sayed Sadat, Sara Javadzadeh, Qian Yang, Allen Wang and 6 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in Research square, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

16 authors.

Takuya NakagawaMoores Cancer Center, University of California, San Diego, La Jolla, CA, USA.ORCID 0000-0003-1216-4822
Jens LuebeckDepartment of Computer Science and Engineering, UC San Diego, La Jolla, CA, USA.ORCID 0000-0003-4391-979X
Kaiyuan ZhuDepartment of Computer Science and Engineering, UC San Diego, La Jolla, CA, USA.
Joshua T LangeDepartment of Pathology, Stanford University School of Medicine, Stanford, CA, USA.ORCID 0000-0002-4246-6058
Roman SasikCenter for Computational Biology and Bioinformatics, University of California, San Diego, La Jolla, CA, USA.ORCID 0000-0002-9266-8993
Chad PhillipsMoores Cancer Center, University of California, San Diego, La Jolla, CA, USA.
Sayed SadatMoores Cancer Center, University of California, San Diego, La Jolla, CA, USA.
Sara JavadzadehDepartment of Computer Science and Engineering, UC San Diego, La Jolla, CA, USA.
Qian YangCenter for Epigenomics, Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA.
Allen WangCenter for Epigenomics, Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA.ORCID 0000-0001-9870-7888
Kersi PestonjamaspCancer Center Microscopy Core, University of California, San Diego, La Jolla, CA, USA.
Brin RosenthalCenter for Computational Biology and Bioinformatics, University of California, San Diego, La Jolla, CA, USA.
Kathleen M FischCenter for Computational Biology and Bioinformatics, University of California, San Diego, La Jolla, CA, USA.ORCID 0000-0002-0117-7444
Paul MischelDepartment of Pathology, Stanford University School of Medicine, Stanford, CA, USA.ORCID 0000-0002-4560-2211
Vineet BafnaDepartment of Computer Science and Engineering, UC San Diego, La Jolla, CA, USA.
Joseph A CalifanoMoores Cancer Center, University of California, San Diego, La Jolla, CA, USA.

Funding

UC San Diego Clinical and Translational Research InstituteUL1TR001442 · NCATS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI FIRESTEIN, GARY S, HOGARTH, MICHAEL · 2015 to 2024
$88.3M
NCATS NIH HHS UL1 TR001442
6 · The paper itself

Abstract

Extrachromosomal circular DNA (ecDNA) have been found in most types of human cancers, and ecDNA incorporating viral genomes has recently been described, specifically in human papillomavirus (HPV)-mediated oropharyngeal cancer (OPC). However, the molecular mechanisms of human-viral hybrid ecDNA (hybrid ecDNA) for carcinogenesis remains elusive. We characterized the epigenetic status of hybrid ecDNA using HPVOPC cell lines and patient-derived tumor xenografts, identifying HPV oncogenes E6/E7 in hybrid ecDNA were flanked by novel somatic DNA enhancers and HPV L1 enhancers, with strong cis-interaction. Targeting of these enhancers by clustered regularly interspaced short palindromic repeats interference or hybrid ecDNA by bromodomain and extra-terminal inhibitor reduced E6/E7 expression, and significantly inhibited

Identifiers

PMID39281879
PMCPMC11398563

What OpenQuestion holds

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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.