Protein-based molecular recognition tools for detecting and profiling RNA modifications

Selective Enrichment of A-to-I Edited Transcripts from Cellular RNA Using Endonuclease V

(2020) Steve D. Knutson et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Deletion of Endonuclease V suppresses chemically induced hepatocellular carcinoma

(2020) Xiang Yi Kong et al.   NUCLEIC ACIDS RESEARCH

The processing, gene regulation, biological functions and clinical relevance of N4-acetylcytidine on RNA: A systematic review

(2020) Gehui Jin et al.   Molecular Therapy-Nucleic Acids

Chemical Profiling of A‐to‐I RNA Editing Using a Click‐Compatible Phenylacrylamide

(2020) Steve D Knutson et al.   CHEMISTRY-A EUROPEAN JOURNAL

m6A-binding YTHDF proteins promote stress granule formation

(2020) Ye Fu et al.   Nature Chemical Biology

irCLASH reveals RNA substrates recognized by human ADARs

(2020) Yulong Song et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Limits in the detection of m6A changes using MeRIP/m6A-seq

(2020) Alexa B. R. McIntyre et al.   Scientific Reports

Asymmetric dimerization of adenosine deaminase acting on RNA facilitates substrate recognition

(2020) Alexander S Thuy-Boun et al.   NUCLEIC ACIDS RESEARCH

REDIportal: millions of novel A-to-I RNA editing events from thousands of RNAseq experiments

(2020) Luigi Mansi et al.   NUCLEIC ACIDS RESEARCH

Precise RNA editing by recruiting endogenous ADARs with antisense oligonucleotides

(2019) Tobias Merkle et al.   NATURE BIOTECHNOLOGY

Where, When, and How: Context-Dependent Functions of RNA Methylation Writers, Readers, and Erasers

(2019) Hailing Shi et al.   MOLECULAR CELL

Programmable RNA-Guided RNA Effector Proteins Built from Human Parts

(2019) Simone Rauch et al.   CELL

Programmable RNA editing by recruiting endogenous ADAR using engineered RNAs

(2019) Liang Qu et al.   NATURE BIOTECHNOLOGY

Multivalent m6A motifs promote phase separation of YTHDF proteins

(2019) Yifei Gao et al.   CELL RESEARCH

mRNA structure determines modification by pseudouridine synthase 1

(2019) Thomas M. Carlile et al.   Nature Chemical Biology

DART-seq: an antibody-free method for global m6A detection

(2019) Kate D. Meyer   NATURE METHODS

Identification of Adenosine-to-Inosine RNA Editing with Acrylonitrile Reagents

(2019) Ying Li et al.   ORGANIC LETTERS

DDX23, an Evolutionary Conserved dsRNA Sensor, Participates in Innate Antiviral Responses by Pairing With TRIF or MAVS

(2019) Jie Ruan et al.   Frontiers in Immunology

Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase

(2019) Jinjun Wu et al.   MOLECULAR CELL

Landscape and Regulation of m6A and m6Am Methylome across Human and Mouse Tissues

(2019) Jun’e Liu et al.   MOLECULAR CELL

Development and validation of monoclonal antibodies against N6-methyladenosine for the detection of RNA modifications

(2019) Shun Matsuzawa et al.   PLoS One

m6A in mRNA coding regions promotes translation via the RNA helicase-containing YTHDC2

(2019) Yuanhui Mao et al.   Nature Communications

Enzymatic or In Vivo Installation of Propargyl Groups in Combination with Click Chemistry for the Enrichment and Detection of Methyltransferase Target Sites in RNA

(2018) Katja Hartstock et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Human ADAR1 Prevents Endogenous RNA from Triggering Translational Shutdown

(2018) Hachung Chung et al.   CELL

Highly parallel direct RNA sequencing on an array of nanopores

(2018) Daniel R Garalde et al.   NATURE METHODS

Detection of Inosine on Transfer RNAs without a Reverse Transcription Reaction

(2018) Adrian G. Torres et al.   BIOCHEMISTRY

Chemical Labeling and Affinity Capture of Inosine-Containing RNAs Using Acrylamidofluorescein

(2018) Steve D. Knutson et al.   BIOCONJUGATE CHEMISTRY

Current strategies for Site-Directed RNA Editing using ADARs

(2018) Maria Fernanda Montiel-Gonzalez et al.   METHODS

Loss of ADAR1 in tumours overcomes resistance to immune checkpoint blockade

(2018) Jeffrey J. Ishizuka et al.   NATURE

Circadian Clock Regulation of Hepatic Lipid Metabolism by Modulation of m6A mRNA Methylation

(2018) Xiang Zhong et al.   Cell Reports

Adenosine Deaminase That Acts on RNA 3 (ADAR3) Binding to Glutamate Receptor Subunit B Pre-mRNA Inhibits RNA Editing in Glioblastoma

(2017) Eimile Oakes et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

RNA Chemical Proteomics Reveals the N6-Methyladenosine (m6A)-Regulated Protein–RNA Interactome

(2017) A. Emilia Arguello et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Epitranscriptomics: Shrinking maps of RNA modifications

(2017) Anya V. Grozhik et al.   NATURE

Dynamic landscape and regulation of RNA editing in mammals

(2017) Meng How Tan et al.   NATURE

Epitranscriptome sequencing technologies: decoding RNA modifications

(2017) Xiaoyu Li et al.   NATURE METHODS

The emerging epitranscriptomics of long noncoding RNAs

(2016) Andrew Shafik et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Pseudouridine: the fifth RNA nucleotide with renewed interests

(2016) Xiaoyu Li et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Nuclear m 6 A Reader YTHDC1 Regulates mRNA Splicing

(2016) Wen Xiao et al.   MOLECULAR CELL

Dynamic regulation of RNA editing in human brain development and disease

(2016) Taeyoung Hwang et al.   NATURE NEUROSCIENCE

Transcriptome-wide distribution and function of RNA hydroxymethylcytosine

(2016) B. Delatte et al.   SCIENCE

RNA Editing: A Contributor to Neuronal Dynamics in the Mammalian Brain

(2016) Mikaela Behm et al.   TRENDS IN GENETICS

The Genomic Landscape and Clinical Relevance of A-to-I RNA Editing in Human Cancers

(2015) Leng Han et al.   CANCER CELL

Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome

(2015) Bastian Linder et al.   NATURE METHODS

A-to-I editing of coding and non-coding RNAs by ADARs

(2015) Kazuko Nishikura   NATURE REVIEWS MOLECULAR CELL BIOLOGY

FTO-dependent demethylation of N6-methyladenosine regulates mRNA splicing and is required for adipogenesis

(2014) Xu Zhao et al.   CELL RESEARCH

m6A RNA Modification Controls Cell Fate Transition in Mammalian Embryonic Stem Cells

(2014) Pedro J. Batista et al.   Cell Stem Cell

A-to-I editing on tRNAs: Biochemical, biological and evolutionary implications

(2014) Adrian Gabriel Torres et al.   FEBS LETTERS

A biochemical landscape of A-to-I RNA editing in the human brain transcriptome

(2014) M. Sakurai et al.   GENOME RESEARCH

Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells

(2014) Thomas M. Carlile et al.   NATURE

The RNA-Editing Enzyme ADAR1 Controls Innate Immune Responses to RNA

(2014) Niamh M. Mannion et al.   Cell Reports

Identification of a Selective Polymerase Enables Detection of N6-Methyladenosine in RNA

(2013) Emily M. Harcourt et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Quantifying RNA allelic ratios by microfluidic multiplex PCR and sequencing

(2013) Rui Zhang et al.   NATURE METHODS

Deciphering the functions and regulation of brain-enriched A-to-I RNA editing

(2013) Jin Billy Li et al.   NATURE NEUROSCIENCE

Human endonuclease V is a ribonuclease specific for inosine-containing RNA

(2013) Yoko Morita et al.   Nature Communications

Adenosine-to-inosine RNA editing and human disease

(2013) William Slotkin et al.   Genome Medicine

Comprehensive Analysis of mRNA Methylation Reveals Enrichment in 3′ UTRs and near Stop Codons

(2012) Kate D. Meyer et al.   CELL

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

(2012) Guanqun Zheng et al.   MOLECULAR CELL

Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq

(2012) Dan Dominissini et al.   NATURE

The essential role of AMPA receptor GluR2 subunit RNA editing in the normal and diseased brain

(2012) Amanda Wright et al.   Frontiers in Molecular Neuroscience

Inosine cyanoethylation identifies A-to-I RNA editing sites in the human transcriptome

(2010) Masayuki Sakurai et al.   Nature Chemical Biology

Function and detection of 5-methylcytosine in eukaryotic RNA

(2010) Jeffrey E Squires et al.   Epigenomics

RNA processing and its regulation: global insights into biological networks

(2009) Donny D. Licatalosi et al.   NATURE REVIEWS GENETICS