Evidence map›Paper›PMID 41157614›Full record

ArticleViruses2025

Elucidating Alterations in Viral and Human Gene Expression Due to Human Papillomavirus Integration by Using Multimodal RNA Sequencing.

Kana Tamai, Sonoko Kinjo, Ayumi Taguchi, Kazunori Nagasaka, Daisuke Yoshimoto, Anh Quynh Duong, Yoko Yamamoto, Hitoshi Iuchi, Mayuyo Mori, Kenbun Sone and 5 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Viruses, 2025. 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. 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

15 authors.

Kana TamaiDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.ORCID 0009-0007-3863-0701
Sonoko KinjoNational Institute of Genetics, Mishima 411-0801, Japan.
Ayumi TaguchiDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.
Kazunori NagasakaDepartment of Obstetrics and Gynecology, School of Medicine, Teikyo University, Itabashi 173-8606, Japan.ORCID 0000-0002-0696-5175
Daisuke YoshimotoDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.
Anh Quynh DuongDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.ORCID 0009-0002-4143-4465
Yoko YamamotoDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.ORCID 0009-0009-4168-8351
Hitoshi IuchiWaseda Research Institute for Science and Engineering, Waseda University, Shinjuku 169-8555, Japan.ORCID 0000-0002-2278-3443
Mayuyo MoriDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.ORCID 0000-0003-4545-0569
Kenbun SoneDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.ORCID 0000-0002-7218-6401
Michiaki HamadaWaseda Research Institute for Science and Engineering, Waseda University, Shinjuku 169-8555, Japan.ORCID 0000-0001-9466-1034
Kei KawanaDepartment of Obstetrics and Gynecology, School of Medicine, Nihon University, Itabashi 173-8610, Japan.
Kazuho IkeoNational Institute of Genetics, Mishima 411-0801, Japan.
Yasushi HirotaDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.ORCID 0000-0003-0241-9780
Yutaka OsugaDepartment of Obstetrics and Gynecology, Graduate School of Medicine, The University of Tokyo, Bunkyo 113-8655, Japan.

Funding

Japan Agency for Medical Research and Development 22wm0325014h0003 and 25wm0325057h0003Japan Society for the Promotion of Science 23K08839
6 · The paper itself

Abstract

Human papillomavirus (HPV) infection is a primary driver of cervical cancer. Integration of HPV into the human genome causes persistent expression of viral oncogenes E6 and E7, which promote carcinogenesis and disrupt host genomic function. However, the impact of integration on host gene expression remains incompletely understood. We used multimodal RNA sequencing, combining total RNA-seq and Cap Analysis of Gene Expression (CAGE), to clarify virus-host interactions after HPV integration. HPV-derived transcripts were detected in 17 of 20 clinical samples. In most specimens, transcriptional start sites (TSSs) showed predominant early promoter usage, and transcript patterns differed with detectable E4 RNA region. Notably, the high RNA expressions of E4 region and viral-human chimeric RNAs were mutually exclusive. Chimeric RNAs were identified in 13 of 17 samples, revealing 16 viral integration sites (ISs). CAGE data revealed two patterns of TSS upregulation centered on the ISs: a two-sided pattern (43.8%) and a one-sided pattern (31.3%). Total RNA-seq showed upregulation of 12 putative cancer-related genes near ISs, including

Indexed as

PapillomaviridaePapillomavirus InfectionsVirus IntegrationFemaleGene Expression ProfilingGene Expression Regulation, ViralHost-Pathogen InteractionsHuman Papillomavirus VirusesHumansSequence Analysis, RNATranscription Initiation SiteUterine Cervical Neoplasmscap analysis of gene expressionhuman papillomavirusRNA sequencingtranscription start sitesviral-human chimeric RNA

Identifiers

PMID41157614
PMCPMC12567678

What Socratic holds

Textmetadata
LicenceCC BY
Read underepoch 390

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 Socratic graph.