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ALKBH5 Is a Mammalian RNA Demethylase that Impacts RNA Metabolism and Mouse Fertility

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Dynamic RNA Modifications in Gene Expression Regulation

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A METTL3–METTL14 complex mediates mammalian nuclear RNA N6-adenosine methylation

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Drugging the Epitranscriptome

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Meta-unstable mRNAs in activated CD8+ T cells are defined by interlinked AU-rich elements and m6A mRNA methylationPreprint

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Passive shaping of intra- and intercellular m6A dynamics via mRNA metabolismPreprint

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LAMP‐MS for Locus‐Specific Visual Quantification of DNA 5 mC and RNA m6A Using Ultra‐Low Input

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Decoding m6Am by simultaneous transcription-start mapping and methylation quantificationPreprint

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m6A peak calling accounting for varying sequencing bias across regions and samples

Zhang, L., Guo, Z., Qin, Z. S., & Wu, Z. J. (2024) · IEEE International Conference on Bioinformatics and Biomedicine (BIBM) · doi:10.1109/bibm62325.2024.10822578

Decoding m6Am by simultaneous transcription-start mapping and methylation quantificationPreprint

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Dynamic, Single‐cell Monitoring of RNA Modifications Response to Viral Infection Using a Genetically Encoded Live‐cell RNA Methylation Sensor

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Passive shaping of intra- and intercellular m6A dynamics via mRNA metabolismPreprint

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Mechanism, detection, and functional application of RNA chemical modifications

Xiao, Y., Deng, Q., Lin, H., Chen, X., Hu, H., Liu, J., & Yi, C. (2025) · Scientia Sinica Vitae · doi:10.1360/ssv-2024-0283

ModiDeC: a multi-RNA modification classifier for direct nanopore sequencingPreprint

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Longitudinal and large-scale monitoring of transcriptome and RBP-RNA interactome in living cells by engineered protein nanocagesPreprint

Wang, Y., Hu, L., Xie, G., Wu, Y., Li, Y., Wan, Z.-L., Li, M., & Wang, J. (2025) · Research Square · doi:10.21203/rs.3.rs-6053638/v1

The role of recurrent somatic mutations that alter conserved m6A motifs in human cancer

Artz, O., White, J. R., Rousseau, B., Argilés, G., Foote, M. B., Johannet, P. M., Patel, M., Abdelfattah, S., Patel, S., Wilde, C. M., et al. (2025) · NAR Cancer · doi:10.1093/narcan/zcaf014

Modifying gene expression through passive forces

Hallstein, S., & König, J. (2025) · eLife · doi:10.7554/elife.107575

m6A-induced ribosome stalling and collision trigger mRNA decay.

Liu, F., & Zhou, Y. (2025) · PubMed · doi:10.1016/j.molcel.2025.06.024

AvaII senses m6A and inosine sites and enables targeted nanopore direct RNA-sequencing

Vries, I. S. N., Preissendörfer, T., König, J., & Dieterich, C. (2025) · Frontiers in Molecular Biosciences · doi:10.3389/fmolb.2025.1593637

Accurate detection and quantification of single-base m6A RNA modification using nanopore signals with multi-view deep learningPreprint

Zhang, J., Qiao, J., Zhao, Z., Yin, C., Jin, J., Wang, D., Gao, W., & Wei, L. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.08.04.668591

N6-Methyladenosine Modification in Vascular Smooth Muscle Disease: A Review

Huang, C., Long, X., & Zhao, R. (2025) · Journal of Vascular Research · doi:10.1159/000548372

Associations of children's urinary metals with blood RNA N6-methyladenosine and 2′-O-methyladenosine

Gigot, C., Li, Y., Wu, H., Estrada‐Gutiérrez, G., Tolentino‐Dolores, M., Cantoral, A., Landero, J., Téllez‐Rojo, M. M., Wright, R. O., Wang, Y., et al. (2025) · Environmental Research · doi:10.1016/j.envres.2025.123133

Transcript-wide m 6 A methylation defines the efficiency of the cap-independent translation initiationPreprint

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Distinct m 6 A and m 1 A Responses to Neuronal Depolarization in Cortical Neurons

Zhang, Y., Chen, T., Jiang, J., Luo, G., Wáng, Y., Liu, J., Wang, L., Wei, W., & Li, X. (2025) · ACS Chemical Neuroscience · doi:10.1021/acschemneuro.5c00764

ModkitOpt: An optimised workflow for RNA modification stoichiometry estimation and site calling from nanopore sequencingPreprint

Sneddon, A., Prodic, S., & Eyras, E. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2025.12.19.695383

Deciphering RNA modification and post-transcriptional regulation with NetRNApan

Xu, H., Deng, W., Hu, R., Liu, B., Zhang, W., Wang, L., Qi, L., Ren, X., Tu, C., Li, Z. H., et al. (2025) · Briefings in Bioinformatics · doi:10.1093/bib/bbaf690

Epitranscriptomic and Epigenetic Regulation of Plant–Microbe Interactions: Methylation Marks as a Case Study

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Mapping and Interpreting RNA Modifications

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MambaNano: Dual-Branch Mamba Framework Achieves Single-Molecule Resolution m6A Detection in Nanopore Direct RNA Sequencing

Zhuang, D., 舒丽媛, Guan, X., & Zhang, D. (2025) · IEEE International Conference on Bioinformatics and Biomedicine (BIBM) · doi:10.1109/bibm66473.2025.11356886

Seven wonders of RNA modification biology

Meier, J. L. (2026) · RNA · doi:10.1261/rna.080887.125

Quantitative and Visual Detection of Pseudouridine at Specific Sites Using Bisulfite-Assisted Rolling Circle Amplification

Liu, X., Li, J., Duan, X., Fang, X., Xue, X., Han, S., Zhou, X., & Yc, W. (2026) · Analytical Chemistry · doi:10.1021/acs.analchem.5c08088

Bridging Target Recognition with Direct Molecular Counting: A DNA Framework Converter-Mediated nFCM Assay Platform for Quantifying Diverse Biochemical Analytes

Zhou, S., Li, Q., Yan, H., Xiao, Z., Liu, L., Li, J., & Qu, F. (2026) · Analytical Chemistry · doi:10.1021/acs.analchem.6c00495

The m 6 A Landscapes on the RNA of Mumps Virus and the Host Modulate the Viral Replication and Antiviral Innate ImmunityPreprint

Wang, S., Zhang, Y., Ping, T., Zeng, X., Yang, M., Wang, W., Hu, Q., Fu, T., Chen, Y., & Lu, M. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.03.09.710556

Decoding m6A: a new frontier in maternal-foetal immunology

Yuan, R., HAO, J., Huang, M., Lin, Y., Chen, H., Wang, C., Yuan, L., & Han, Z. (2026) · Frontiers in Immunology · doi:10.3389/fimmu.2026.1770723

Systematic identification of tissue-conserved m 6 A sites reveals a stable epitranscriptomic regulatory layer controlling essential genesPreprint

Jo, S., Zhang, T. Q., Gao, S., & Huang, Y. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.03.19.713046

Transcript architecture sets the m 6 A landscape: CSTF2 and CSTF2T reshape m 6 A through cleavage-dependent and -independent mechanismsPreprint

Aufgebauer, C. J., Nelson, T. M., Houerbi, N., Veenbaas, S. D., Tegowski, M., Luo, E., Sivasudhan, E., Goneos, M., Collier, P. G., Proszynski, J., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.03.27.714597

Stoichiometry-preserving and stochasticity-aware identification of m6A from direct RNA sequencing

Wang, F., Chen, M., Li, J., Yu, Y., Guo, Z., & Zou, M. (2026) · Briefings in Bioinformatics · doi:10.1093/bib/bbag132

Impact de la modification epitranscriptomique m6A sur la structure de l'ARN du VIH-1

Martynov, V. (2024) · theses.fr (ABES) · doi:10.70675/3e95897azed88z44d2z8b99zb09c7d65e782

Calibrated analysis framework for nanopore direct RNA sequencing uncovers cell-specific m⁶A proportions at conserved sitesPreprint

Ohnezeit, D., Loliashvili, E., Putzel, G., Verstraten, R., Silhavy, A. T., Liu, J. F., Nicholson, L. V. B., Pironti, A., Jaffrey, S. R., Depledge, D. P., et al. (2026) · eLife · doi:10.7554/elife.110672

Direct RNA Sequencing reveals epitranscriptomic regulation of brain cells and Alzheimer’s Disease pathologyPreprint

Byrne, A., Hoover, J., Lund, J. M., Zhang, A., Shan, X., Sharma, A. D., Chen, X., Xavier‐Magalhães, A., Phu, L., Choi, M., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.05.18.724443 · Cited by 2

Achieving precise m6A RNA modification prediction from nanopore signals through integration with pre-trained foundation model

Zhang, J., Zhao, Z., Lu, H., & Yan, Z. (2026) · International Journal of Biological Macromolecules · doi:10.1016/j.ijbiomac.2026.152629

m 6 A positions polyadenylation in Plasmodium falciparumPreprint

Levendis, J. M., Distiller, A., Mussgnug, S., Fernando, L., Lancashire, S., Young, N. D., McHugh, E., Baumgarten, S., & Ralph, S. A. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.05.19.726191

Antibody-Free and Highly Sensitive Detection of Site-Specific m 6 A Modification via Terminal-Mediated m 6 A PCR

Guo, Y. P., Yang, Z., Yang, H., Qin, H., Shi, L., Gu, H., Xu, G., Teng, J., & Xu, H. (2026) · Analytical Chemistry · doi:10.1021/acs.analchem.6c01426

Extracting biological motif patterns for multiple RNA modifications using direct RNA sequencingPreprint

Alagna, N., Basiony, Y., Miedema, J., & Gerber, S. (2026) · Research Square · doi:10.21203/rs.3.rs-9223845/v1

Integrating mass spectrometry with Nanopore direct RNA sequencing for de novo modification profiling of bacteriophage MS2Preprint

Jones, J. D., Esfahani, N. G., Goemann, C. L. C., Wiegand, T., Nemudryi, A. A., Ruan, M., Li, X., Tardu, M., Kennedy, R. T., Wiedenheft, B., et al. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.06.01.729303

Integrative analysis of the m 6 A epitranscriptome in HeLa-expressed HPV18 early transcripts reveals its potential impact on splicing

Hellebek, I. R., Schlosser, M. S. L., Jönsson, J., Auxillos, J., & Rennie, S. (2026) · RNA · doi:10.1261/rna.080698.125

Validation of the mRNA epitranscriptome: SCARPET reveals that mapped m1A sites are inosine

Nalavade, R., Mirza, A. H., & Jaffrey, S. R. (2026) · EMBO Reports · doi:10.1038/s44319-026-00840-2

Longitudinal monitoring of cytoplasmic RBP-RNA interactions and transcriptome in living cells by engineered protein nanocages

Hu, L., Xie, G., Wu, Y., Li, Y. L., Wan, Z.-L., Li, M., Wang, J.-Z., & Wang, Y. (2026) · Molecular Cell · doi:10.1016/j.molcel.2026.06.007 · Cited by 2

Single-nucleotide RNA m6A mapping in bovine preimplantation development reveals site-specific regulation of RPL12 at zygotic genome activation

Iyyappan, R., Niu, Y., Li, Y., Ming, H., Pajdzik, K., Rakestraw, N. R., Jain, P., He, C., Zong, C. C., & Jiang, Z. (2026) · Cell Reports · doi:10.1016/j.celrep.2026.117635

Wanted and unwanted modifications of mRNA and their effect on gene expression and signaling

Urs, A. N. N., Dali, A., & Zaher, H. S. (2026) · Journal of Biological Chemistry · doi:10.1016/j.jbc.2026.113314

Noncanonical caps, m6A, and Ψ RNA modifications in plant and animal development

Chen, X., Hu, H., Jia, G., Yi, C., & Zhu, D. (2026) · Developmental Cell · doi:10.1016/j.devcel.2026.05.013

Phosphate Starvation Shapes M 6 A Modification and Poly(A) Tails to Regulate mRNA Decay in Rice

Chen, W., Zhu, Y., Zhang, Z., Wang, Z., Kuang, H., Yang, Z., Tan, C., Lin, H., & Yang, J. (2026) · Plant Cell & Environment · doi:10.1111/pce.70694

RModBlock antisense oligonucleotides as a universal tool for precise and efficient inhibition of RNA modifications

My, M., Yao, J., Chen, W., Gu, N., Kou, K., Zhang, Y., Huang, T., & Zhang, R. (2026) · Nature Biomedical Engineering · doi:10.1038/s41551-026-01746-z

Emerging roles of m6A in female reproductive disorders: from molecular mechanisms to therapeutic targets

Yuan, R., He, Y., Qian, T., Huang, M., Li, J. R., Huang, C., Gu, Q., Zhang, S., Mao, Z., Wei, X., et al. (2026) · Journal of Assisted Reproduction and Genetics · doi:10.1007/s10815-026-03953-8

Editing the message: 3′UTR cis-regulatory elements at the nexus of post-transcriptional regulation and crop improvement

Zhang, Z., Liu, S., Paul, S., Notaguchi, M., Zhang, W., & Kitagawa, M. (2026) · Horticulture Advances · doi:10.1007/s44281-026-00112-y

Reader-dependent functional duality of FTO: a context-switching node at the intersection of immune evasion and therapeutic resistance

Tian, W., Xie, B., & Zhan, P. (2026) · Frontiers in Immunology · doi:10.3389/fimmu.2026.1861781

Compendium of RNA modifications for bacterial stress adaptation

Cusack, S. A., Riquelme-Barrios, S., Rivera-Montero, L., Vásquez-Camus, L., Devassy, D., & Jung, K. (2026) · Microbiology and Molecular Biology Reviews · doi:10.1128/mmbr.00374-25

From contested target to context-aware node: A three-layer regulatory code for interpreting FTO's oncogene–tumor suppressor paradox in cancer

Oriquat, G., Ismail, S. H., Gajjar, T. B., Jamuna, K. V., Ahmad, I. A., Tripathi, V., Maharana, L., & Tailor, N. K. (2026) · Experimental Cell Research · doi:10.1016/j.yexcr.2026.115145

m 6 A pathway suppression reprograms gene expression during the integrated stress responsePreprint

Murakami, S., & Jaffrey, S. R. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.08.05.742933

Reversible m 6 Am methylation of snRNA by FTO controls morphine reward and tolerance without altering analgesiaPreprint

Pan, Y., Liu, S., Malik, A., Chien, R., Liu, J. F., Nicholson, L. V. B., Xu, J., Didehvar, K., Rai, V., Rouzic, V. L., et al. (2026) · Research Square · doi:10.64898/2026.08.06.743062

Quantitative single-base m6A profiling reveals dynamic reprogramming, evolutionary conservation and transcriptional regulation in bacteria

Li, Y., Xu, L., Liu, N., You, X., Huang, J., Sun, Y., Lu, B., Yao, C., & Deng, X. (2026) · Cell Reports · doi:10.1016/j.celrep.2026.117831

METTL3 inhibition attenuates the macrophage type I interferon responsePreprint

Courvan, E. M. C., Hecht, C. J. S., Longshore-Neate, F., Vasconcelos, L., & Parker, R. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.08.14.744930

Epitranscriptomic regulation of plant–pathogen interactions and disease resistance

Naseem, M. T., & Zaman, W. (2026) · Physiological and Molecular Plant Pathology · doi:10.1016/j.pmpp.2026.103485

RNA modifications as determinants of cancer cell death: from epitranscriptomic mechanisms to therapeutic targeting

Mukherjee, A. G., Bharti, A. K., Mathew, D. M., Varma, B. M., Pradhan, S., & Gopalakrishnan, A. V. (2026) · Functional & Integrative Genomics · doi:10.1007/s10142-026-02016-6

Advances in Poultry RNA-Omics Research: Technologies, RNA Information Layers, and Applications in Complex Traits

Dao, W., Zhang, S., Zhang, T., Fan, X., & Miao, Y. (2026) · Animals · doi:10.3390/ani16172700

Beyond m6A: The Expanding Landscape of mRNA Modifications in Renal Cell Carcinoma

Hou, Z., Tan, D., Xiong, Z., & Miao, D. (2026) · Biomedicines · doi:10.3390/biomedicines14091962

Characterization of METTL3/14-mediated m6A modification in human transcriptome using Nanopore direct RNA sequencing

Kurtyan, E., Stein, A. J., Abdalla, K. J., Yuan, Z., Jain, M., & Ibrahim, F. (2026) · PLoS Genetics · doi:10.1371/journal.pgen.1012278

m6A-ARTR-DBiT for Spatial Mapping of m6A Epitranscriptome

Xu, K., Huan, X., & Xiao, Y. (2026) · ACS Chemical Biology · doi:10.1021/acschembio.6c00603

pgRNA-m 6 A levels associate with HBV replication and liver function

Yang, C., Qin, S., Gao, R.-H., Li, A., Song, S., Zhou, Y., & Liu, S.-M. (2026) · Epigenetics · doi:10.1080/15592294.2026.2726628

From association to actionable biomarkers: overcoming the RNA 5-methylcytosine measurement gap in cancer

Wu, Y., Zhang, K., Sun, X., Zha, H., Cheng, K., Yao, J., Ren, S., & Li, M. (2026) · LabMed discovery. · doi:10.1016/j.lmd.2026.100146

Advances in RNA m6A modification research and its role in poultry economic traits

Liu, J., Liu, H., Huang, X., Xiao, Z., Li, S., Hu, X., Liu, S., Mao, H., & Chen, B. (2026) · Poultry Science · doi:10.1016/j.psj.2026.107761

Advances of N6-methyladenosine RNA methylation in tree species

Wang, H., Wang, H., Jin, X., Wang, Y., Zhao, L., Jiang, B., & Gu, L. (2026) · Trends in Plant Science · doi:10.1016/j.tplants.2026.08.011

The dual role of m6A modification in urological cancers: Insights into tumor cell-intrinsic and immune microenvironment regulation

Chen, Y., & Xu, B. (2026) · Cancer Heterogeneity and Plasticity · doi:10.47248/chp2603040013

ZNF121 recruits YTHDF2 to modulate mRNA stability

Burke, G. L., Nabeel‐Shah, S., Pu, S., Ahmed, N., Morcos, S. M., Burns, J. D., Abosen, A., Zhong, G., Campos, E. I., & Greenblatt, J. F. (2026) · Cell Reports · doi:10.1016/j.celrep.2026.118087

The stability of m6A-marked transcripts is linked to cell identity in planarians

Höhn, C., Pittroff, A., Gribling-Burrer, A.-S., Hülsmann, L., Smyth, R. P., & Kuhn, C. (2026) · Nucleic Acids Research · doi:10.1093/nar/gkag892

Single residues within the YTHDF intrinsically disordered region control m 6 A-dependent mRNA decayPreprint

Ricci, B., Sommer, D., Narvaez, D., Zhang, R., Geri, J. B., & Zaccara, S. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.09.18.752746 · Cited by 1

Clinical significance of RNA modifications in hepatic fibrosis

薛玉芹, Ran, M., Wang, S., Dai, F., Bai, M., Wang, Y., 沈艾, Ye, J., Li, D., & Li, H. (2026) · iLiver · doi:10.1016/j.iliver.2026.100275

Deciphering transcriptome complexity via long‐read sequencing

Xu, C., Li, J., Yin, C., Li, K., Wang, T., Gao, S., Yu, Y., Chang, C., Wang, Y., Tong, G., et al. (2026) · iMeta · doi:10.1002/imt2.70171

A feedback mechanism of m6A via PARP1-mediated ADP ribosylation of METTL3/METTL14

Bai, Y., Zhou, Z., Yan, X., Li, X., Dong, Y., Zhou, T., Xiao, Y., Si, M., Liu, Q., Peng, J., et al. (2026) · Molecular Cell · doi:10.1016/j.molcel.2026.09.027

Epigenetic regulation of humoral immunity: molecular mechanisms, diseases and therapeutic targets

Zhang, S., Yu, W. Z., Min, X., Wu, Y., & Liu, W. (2026) · Signal Transduction and Targeted Therapy · doi:10.1038/s41392-026-02955-3

Epitranscriptome-gated RNA druggability: chemical modifications, conformational pockets, and small-molecule recognition

Gaikwad, K. N., Niranjangoudra, S., Malabade, S., Agalgave, V. C., Bhandurge, P. J., Kamat, M., & Patil, S. (2026) · Journal of Molecular Structure · doi:10.1016/j.molstruc.2026.147879

The m 6 A motif is an anti-3′ splice sitePreprint

Roy, K. R., & Chanfreau, G. (2026) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.64898/2026.10.16.759739

Optimized GLORI-Seq of Chromatin-Associated RNAs

Cun, Y., Liu, J., Ye, M., Huang, X., Bao, X., & Wang, J. (2026) · Methods in molecular biology · doi:10.1007/978-1-0716-5627-3_5

Calibrated analysis framework for nanopore direct RNA sequencing uncovers cell-specific m⁶A proportions at conserved sitesPreprint

Ohnezeit, D., Loliashvili, E., Putzel, G., Verstraten, R., Silhavy, A. T., Liu, J. F., Nicholson, L. V. B., Pironti, A., Jaffrey, S. R., Depledge, D. P., et al. (2026) · eLife · doi:10.7554/elife.110672.2

Molecular functions, cellular responses and pathological implications of the RNA modification N6-methyladenosine

Kang, Z., Zhang, F., Ming, G., Song, H., & Liu, J. (2026) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-026-01039-y

Extracting candidate motif patterns for multiple RNA modifications using direct RNA sequencing

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Epitranscriptomic landscapes in periodontitis: unraveling the regulatory roles of RNA Modifications

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