Dynamic methylome of internal mRNA N7-methylguanosine and its regulatory role in translation

Multi-omic measurements of heterogeneity in HeLa cells across laboratories

(2019) Yansheng Liu et al.   NATURE BIOTECHNOLOGY

METTL1 Promotes let-7 MicroRNA Processing via m7G Methylation

(2019) Luca Pandolfini et al.   MOLECULAR CELL

Transcriptome-wide Mapping of Internal N7-Methylguanosine Methylome in Mammalian mRNA

(2019) Li-Sheng Zhang et al.   MOLECULAR CELL

5-methylcytosine promotes pathogenesis of bladder cancer through stabilizing mRNAs

(2019) Xin Chen et al.   NATURE CELL BIOLOGY

Existence of Internal N7-Methylguanosine Modification in mRNA Determined by Differential Enzyme Treatment Coupled with Mass Spectrometry Analysis

(2018) Jie-Mei Chu et al.   ACS Chemical Biology

Identification of YTH Domain-Containing Proteins as the Readers for N1-Methyladenosine in RNA

(2018) Xiaoxia Dai et al.   ANALYTICAL CHEMISTRY

Mettl1/Wdr4-Mediated m 7 G tRNA Methylome Is Required for Normal mRNA Translation and Embryonic Stem Cell Self-Renewal and Differentiation

(2018) Shuibin Lin et al.   MOLECULAR CELL

Recognition of RNA N6-methyladenosine by IGF2BP proteins enhances mRNA stability and translation

(2018) Huilin Huang et al.   NATURE CELL BIOLOGY

Modification of N6-methyladenosine RNA methylation on heat shock protein expression

(2018) Jiayao Yu et al.   PLoS One

Reading m 6 A in the Transcriptome: m 6 A-Binding Proteins

(2018) Deepak P. Patil et al.   TRENDS IN CELL BIOLOGY

M1A within cytoplasmic mRNAs at single nucleotide resolution: A reconciled transcriptome-wide map

(2018) Schraga Schwartz   RNA

AlkAniline-Seq: Profiling of m7 G and m3 C RNA Modifications at Single Nucleotide Resolution

(2018) Virginie Marchand et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

N6-Methyladenosine methyltransferase ZCCHC4 mediates ribosomal RNA methylation

(2018) Honghui Ma et al.   Nature Chemical Biology

NSUN2-Mediated m5C Methylation and METTL3/METTL14-Mediated m6A Methylation Cooperatively Enhance p21 Translation

(2017) Qiu Li et al.   JOURNAL OF CELLULAR BIOCHEMISTRY

The N6-methyladenosine (m6A)-forming enzyme METTL3 controls myeloid differentiation of normal hematopoietic and leukemia cells

(2017) Ly P Vu et al.   NATURE MEDICINE

MODOMICS: a database of RNA modification pathways. 2017 update

(2017) Pietro Boccaletto et al.   NUCLEIC ACIDS RESEARCH

Transcriptome-Wide Mapping of RNA 5-Methylcytosine in Arabidopsis mRNAs and Noncoding RNAs

(2017) Rakesh David et al.   PLANT CELL

The dynamic N1-methyladenosine methylome in eukaryotic messenger RNA

(2016) Dan Dominissini et al.   NATURE

m6A RNA methylation promotes XIST-mediated transcriptional repression

(2016) Deepak P. Patil et al.   NATURE

Core transcription factors, Oct4, Sox2 and Nanog, individually form complexes with nucleophosmin (Npm1) to control embryonic stem (ES) cell fate determination

(2016) Helena Johansson et al.   Aging-US

5′ UTR m6A Promotes Cap-Independent Translation

(2015) Kate D. Meyer et al.   CELL

HNRNPA2B1 Is a Mediator of m6A-Dependent Nuclear RNA Processing Events

(2015) Claudio R. Alarcón et al.   CELL

N6-methyladenosine Modulates Messenger RNA Translation Efficiency

(2015) Xiao Wang et al.   CELL

Meta- and Orthogonal Integration of Influenza “OMICs” Data Defines a Role for UBR4 in Virus Budding

(2015) Shashank Tripathi et al.   Cell Host & Microbe

A majority of m6A residues are in the last exons, allowing the potential for 3′ UTR regulation

(2015) Shengdong Ke et al.   GENES & DEVELOPMENT

Oxidative stress-related DNA damage and homologous recombination repairing induced byN,N-dimethylformamide

(2015) Cui Wang et al.   JOURNAL OF APPLIED TOXICOLOGY

The human 18S rRNA base methyltransferases DIMT1L and WBSCR22-TRMT112 but not rRNA modification are required for ribosome biogenesis

(2015) Christiane Zorbas et al.   MOLECULAR BIOLOGY OF THE CELL

Dynamic m6A mRNA methylation directs translational control of heat shock response

(2015) Jun Zhou et al.   NATURE

N6-methyladenosine-dependent RNA structural switches regulate RNA–protein interactions

(2015) Nian Liu et al.   NATURE

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

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

(2015) Bastian Linder et al.   NATURE METHODS

Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

(2015) A. Zeisel et al.   SCIENCE

The small molecule ISRIB reverses the effects of eIF2α phosphorylation on translation and stress granule assembly

(2015) Carmela Sidrauski et al.   eLife

High-ResolutionN6-Methyladenosine (m6A) Map Using Photo-Crosslinking-Assisted m6A Sequencing

(2014) Kai Chen et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Oxidative stress-induced p53 activity is enhanced by a redox-sensitive TP53INP1 SUMOylation

(2014) S Peuget et al.   CELL DEATH AND DIFFERENTIATION

Mammalian WTAP is a regulatory subunit of the RNA N6-methyladenosine methyltransferase

(2014) Xiao-Li Ping et al.   CELL RESEARCH

Landscape and variation of RNA secondary structure across the human transcriptome

(2014) Yue Wan et al.   NATURE

N6-methyladenosine modification destabilizes developmental regulators in embryonic stem cells

(2014) Yang Wang et al.   NATURE CELL BIOLOGY

Structural basis for selective binding of m6A RNA by the YTHDC1 YTH domain

(2014) Chao Xu et al.   Nature Chemical Biology

Mapping Argonaute and conventional RNA-binding protein interactions with RNA at single-nucleotide resolution using HITS-CLIP and CIMS analysis

(2014) Michael J Moore et al.   Nature Protocols

WBSCR22/Merm1 is required for late nuclear pre-ribosomal RNA processing and mediates N7-methylation of G1639 in human 18S rRNA

(2014) Sara Haag et al.   RNA

HITS-CLIP and Integrative Modeling Define the Rbfox Splicing-Regulatory Network Linked to Brain Development and Autism

(2014) Sebastien M. Weyn-Vanhentenryck et al.   Cell Reports

Polysome Fractionation and Analysis of Mammalian Translatomes on a Genome-wide Scale

(2014) Valentina Gandin et al.   Jove-Journal of Visualized Experiments

Cap-binding complex (CBC)

(2013) Thomas Gonatopoulos-Pournatzis et al.   BIOCHEMICAL JOURNAL

Regulation of Btg2/TIS21/PC3 expression via reactive oxygen species–protein kinase C–ΝFκΒ pathway under stress conditions

(2013) Muhammad Imran et al.   CELLULAR SIGNALLING

N6-methyladenosine-dependent regulation of messenger RNA stability

(2013) Xiao Wang et al.   NATURE

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

(2013) Jianzhao Liu et al.   Nature Chemical Biology

Transcriptome-wide mapping of N6-methyladenosine by m6A-seq based on immunocapturing and massively parallel sequencing

(2013) Dan Dominissini et al.   Nature Protocols

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

(2012) Kate D. Meyer et al.   CELL

Regulation of eukaryotic gene expression by the untranslated gene regions and other non-coding elements

(2012) Lucy W. Barrett et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Before It Gets Started: Regulating Translation at the 5′ UTR

(2012) Patricia R. Araujo et al.   COMPARATIVE AND FUNCTIONAL GENOMICS

RNA Binding Protein/RNA Element Interactions and the Control of Translation

(2012) Xavier Pichon et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Translation Initiation on mRNAs Bound by Nuclear Cap-binding Protein Complex CBP80/20 Requires Interaction between CBP80/20-dependent Translation Initiation Factor and Eukaryotic Translation Initiation Factor 3g

(2012) Junho Choe et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Trm112 Is Required for Bud23-Mediated Methylation of the 18S rRNA at Position G1575

(2012) S. Figaro et al.   MOLECULAR AND CELLULAR BIOLOGY

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

(2012) Dan Dominissini et al.   NATURE

CBX4-mediated SUMO modification regulates BMI1 recruitment at sites of DNA damage

(2012) Ismail Hassan Ismail et al.   NUCLEIC ACIDS RESEARCH

Cellular Dynamics of RNA Modification

(2011) Chengqi Yi et al.   ACCOUNTS OF CHEMICAL RESEARCH

A quantitative analysis of CLIP methods for identifying binding sites of RNA-binding proteins

(2011) Shivendra Kishore et al.   NATURE METHODS

RNA nucleotide methylation

(2011) Yuri Motorin et al.   Wiley Interdisciplinary Reviews-RNA

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

(2010) Julian König et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Function and detection of 5-methylcytosine in eukaryotic RNA

(2010) Jeffrey E Squires et al.   Epigenomics

Regulation of mRNA cap methylation

(2009) Victoria H. Cowling   BIOCHEMICAL JOURNAL

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Detection of nonneutral substitution rates on mammalian phylogenies

(2009) K. S. Pollard et al.   GENOME RESEARCH

A Proteomic Investigation of Ligand-dependent HSP90 Complexes Reveals CHORDC1 as a Novel ADP-dependent HSP90-interacting Protein

(2009) Jacob J. Gano et al.   MOLECULAR & CELLULAR PROTEOMICS

N 7-Methylguanine at position 46 (m7G46) in tRNA from Thermus thermophilus is required for cell viability at high temperatures through a tRNA modification network

(2009) Chie Tomikawa et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

(2009) N. T. Ingolia et al.   SCIENCE

Bud23 Methylates G1575 of 18S rRNA and Is Required for Efficient Nuclear Export of Pre-40S Subunits

(2008) J. White et al.   MOLECULAR AND CELLULAR BIOLOGY