Evidence map›Paper›PMID 41696908›Full record

ArticleMolecular omics2026

Development of an immobilized system for RNA modification analysis.

Zhiyan Li, Luyao Yu, Xingyu Liu, Liangle Deng, Zongtao Lin, Zhuocheng Liu, Benjamin A Garcia, Yixuan Xie

Abstract read
In one paragraph

Article in Molecular omics, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

8 authors.

Zhiyan LiNHC Key Laboratory of Glycoconjugates Research, Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China.
Luyao YuNHC Key Laboratory of Glycoconjugates Research, Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China.
Xingyu LiuDepartment of Biochemistry and Molecular Biophysics, Washington University School of Medicine, St. Louis, MO 63110, United States.
Liangle DengSchool of Biological and Food Engineering, Suzhou University, Suzhou, Anhui 234000, China.
Zongtao LinDepartment of Medicinal Chemistry, Rutgers University, Piscataway, NJ 08854, United States.ORCID 0000-0002-6017-338X
Zhuocheng LiuSchool of Biological and Food Engineering, Suzhou University, Suzhou, Anhui 234000, China.
Benjamin A GarciaState Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine, School of Life Sciences and Institutes of Biomedical Sciences, Fudan University, Shanghai 200032, China.
Yixuan XieNHC Key Laboratory of Glycoconjugates Research, Department of Biochemistry and Molecular Biology, School of Basic Medical Sciences, Fudan University, Shanghai 200032, China.ORCID 0000-0002-8512-6053

Funding

Viral modulation of epitranscriptomic mechanismsR01AI118891 · NIAID · WASHINGTON UNIVERSITY · PI GARCIA, BENJAMIN A, WEITZMAN, MATTHEW D. · 2015 to 2025
$5.4M
Quantitative mass spectrometry for comprehending epigenetic mechanisms in a new underlying neurological developmental disorderR01HD106051 · NICHD · WASHINGTON UNIVERSITY · PI Benjamin A Garcia · 2022 to 2026
$2.6M
Development and Application of Chemical Biology Approaches for Understanding Protein ArginylationR01HL177113 · NHLBI · WASHINGTON UNIVERSITY · PI Benjamin A Garcia, Zongtao Lin · 2025 to 2026
$1.2M
Hijacking Post-translational Arginylation for Targeted Protein DegradationR21CA292191 · NCI · WASHINGTON UNIVERSITY · PI LIN, ZONGTAO, LYU, DONGWEN · 2024 to 2024
$426k
Greater Bay Area Institute of Precision Medicine I0036(A)National Natural Science Foundation of China 22507114NHLBI NIH HHS R01 HL177113NIAID NIH HHS R01 AI118891NICHD NIH HHS R01 HD106051NIH HHS AI118891NIH HHS CA196539NIH HHS HD106051NIH HHS R21CA292191Suzhou University Doctoral Startup Research Fund 2022BSK023
6 · The paper itself

Abstract

Characterizing RNA modifications is crucial for understanding fundamental biological processes, such as RNA folding, stability, translation, and splicing. However, current systems for ribonucleoside sample preparation are limited to the solution phase. In this study, we employed the click reaction between methyltetrazine and trans-cyclooctene to immobilize RNases, including nuclease P1, phosphodiesterase I, and shrimp alkaline phosphatase, on agarose beads. Using this digestion method, RNA was fully converted to ribonucleosides within 30 min. Importantly, integrating these immobilized RNases with a microspin tube modified with porous graphitic carbon enabled direct downstream MS analysis, constituting a streamlined system. We applied this system to monitor RNA modification dynamics during transforming growth factor-β (TGF-β)-induced epithelial-mesenchymal transition in lung cancer cells and observed significant changes in several RNA modifications (e.g. m6A and m5U), which is consistent with the indispensable role of RNA modifications in tumour metastasis. Overall, our results demonstrate the efficiency and robustness of our method and highlight a promising direction for RNA modification analysis, supporting the development of automated, high-throughput workflows for future large-cohort studies.

Indexed as

RNARNA Processing, Post-TranscriptionalCell Line, TumorEpithelial-Mesenchymal TransitionHumansRibonucleasesRNA MethylationTransforming Growth Factor betaRibonucleasesRNATransforming Growth Factor beta

Identifiers

PMID41696908
PMCPMC12851623

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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.