Evidence map›Paper›PMID 38605174›Full record

ArticleNature microbiology2024

Single-molecule epitranscriptomic analysis of full-length HIV-1 RNAs reveals functional roles of site-specific m

Alice Baek, Ga-Eun Lee, Sarah Golconda, Asif Rayhan, Anastasios A Manganaris, Shuliang Chen, Nagaraja Tirumuru, Hannah Yu, Shihyoung Kim, Christopher Kimmel and 5 more

Abstract read
In one paragraph

Article in Nature microbiology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.

0numbers the graph read from it
0cells of the map it votes in
43citing 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

43 citing papers in PubMed.

  1. Review
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  15. Deacetylation of ACLY Mediates RNA MAdvanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025
    Article
  16. High-resolution HIV-1 mNAR genomics and bioinformatics · 2025
    Article
  17. Single-base mJournal of virology · 2025
    Article
  18. Article
  19. Impact of NbioRxiv : the preprint server for biology · 2025
    Article
  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

15 authors.

Alice Baek *Center for Retrovirus Research, Ohio State University, Columbus, OH, USA.
Ga-Eun Lee *Center for Retrovirus Research, Ohio State University, Columbus, OH, USA.
Sarah GolcondaCenter for Retrovirus Research, Ohio State University, Columbus, OH, USA.
Asif RayhanRieveschl Laboratories for Mass Spectrometry, Department of Chemistry, University of Cincinnati, Cincinnati, OH, USA.
Anastasios A ManganarisTranslational Data Analytics Institute, Ohio State University, Columbus, OH, USA.
Shuliang ChenCenter for Retrovirus Research, Ohio State University, Columbus, OH, USA.
Nagaraja TirumuruCenter for Retrovirus Research, Ohio State University, Columbus, OH, USA.
Hannah YuCenter for Retrovirus Research, Ohio State University, Columbus, OH, USA.
Shihyoung KimCenter for Retrovirus Research, Ohio State University, Columbus, OH, USA.
Christopher KimmelDepartment of Veterinary Biosciences, Ohio State University, Columbus, OH, USA.
Olivier ZablockiCenter of Microbiome Science, Ohio State University, Columbus, OH, USA.
Matthew B SullivanCenter of Microbiome Science, Ohio State University, Columbus, OH, USA.ORCID http://orcid.org/0000-0001-8398-8234
Balasubrahmanyam AddepalliRieveschl Laboratories for Mass Spectrometry, Department of Chemistry, University of Cincinnati, Cincinnati, OH, USA.
Li WuDepartment of Microbiology and Immunology, Carver College of Medicine, University of Iowa, Iowa City, IA, USA.ORCID http://orcid.org/0000-0002-5468-2487
Sanggu KimCenter for Retrovirus Research, Ohio State University, Columbus, OH, USA. kim.6477@osu.edu.ORCID http://orcid.org/0000-0003-1228-6168

Funding

UPLC for Enhanced Mass Spectrometry of Modified RNAsR01GM058843 · NIGMS · UNIVERSITY OF CINCINNATI · PI LIMBACH, PATRICK A · 1999 to 2025
$5.1M
On-site, high-fidelity target sequencing and absolute quantitation for HIV-1 surveillanceR01HG010318 · NHGRI · OHIO STATE UNIVERSITY · PI KIM, SANGGU · 2018 to 2021
$2.9M
Targeting HIV-1 RNA modifications in latently infected CD4+ T cells for therapeutic developmentR61AI169659 · NIAID · UNIVERSITY OF IOWA · PI WU, LI · 2022 to 2024
$2.2M
Targeting HIV-1 RNA modifications in latently infected CD4+ T cells for therapeutic developmentR33AI169659 · NIAID · UNIVERSITY OF IOWA · PI Li Wu · 2025 to 2026
$1.5M
High-accuracy, long-range sequencing for HIV-1 genotypingR21HG010108 · NHGRI · OHIO STATE UNIVERSITY · PI KIM, SANGGU · 2018 to 2020
$624k
HIV-1-induced upregulation of m6A modifications of cellular RNA in CD4+ T-cellsR21AI170070 · NIAID · UNIVERSITY OF IOWA · PI PHILLIPS, STACIA L, WU, LI · 2022 to 2023
$425k
Mass Spectrometry of Ribosomal RNA:Protein InteractionsR56GM058843 · NIGMS · UNIVERSITY OF CINCINNATI · PI LIMBACH, PATRICK A · 2009 to 2009
$330k
NHGRI NIH HHS R01 HG010318NHGRI NIH HHS R21 HG010108NIAID NIH HHS R21 AI170070NIAID NIH HHS R33 AI169659NIAID NIH HHS R61 AI169659NIGMS NIH HHS R01 GM058843NIGMS NIH HHS R56 GM058843
6 · The paper itself

Abstract

Although the significance of chemical modifications on RNA is acknowledged, the evolutionary benefits and specific roles in human immunodeficiency virus (HIV-1) replication remain elusive. Most studies have provided only population-averaged values of modifications for fragmented RNAs at low resolution and have relied on indirect analyses of phenotypic effects by perturbing host effectors. Here we analysed chemical modifications on HIV-1 RNAs at the full-length, single RNA level and nucleotide resolution using direct RNA sequencing methods. Our data reveal an unexpectedly simple HIV-1 modification landscape, highlighting three predominant N

Indexed as

AdenosineHIV-1RNA, ViralVirus ReplicationHIV InfectionsHumansRNA, MessengerRNA SplicingSequence Analysis, RNATranscriptomeAdenosineN-methyladenosineRNA, MessengerRNA, Viral

Identifiers

PMID38605174
PMCPMC11087264

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.