The chemical diversity of RNA modifications

Modifications and functional genomics of human transfer RNA

(2018) Tao Pan   CELL RESEARCH

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

(2018) Huilin Huang et al.   NATURE CELL BIOLOGY

The m6A reader protein YTHDC2 interacts with the small ribosomal subunit and the 5′-3′ exoribonuclease XRN1

(2018) Jens Kretschmer et al.   RNA

Eukaryotic RNA 5′-End NAD + Capping and DeNADding

(2018) Megerditch Kiledjian   TRENDS IN CELL BIOLOGY

MODOMICS: a database of RNA modification pathways. 2017 update

(2017) Pietro Boccaletto et al.   NUCLEIC ACIDS RESEARCH

Additive CHARMM force field for naturally occurring modified ribonucleotides

(2016) You Xu et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Mutagenesis ofS-Adenosyl-l-Methionine-Binding Residues in Coronavirus nsp14 N7-Methyltransferase Demonstrates Differing Requirements for Genome Translation and Resistance to Innate Immunity

(2016) James Brett Case et al.   JOURNAL OF VIROLOGY

Nuclear m 6 A Reader YTHDC1 Regulates mRNA Splicing

(2016) Wen Xiao et al.   MOLECULAR CELL

Structural Basis for Cooperative Function of Mettl3 and Mettl14 Methyltransferases

(2016) Ping Wang et al.   MOLECULAR CELL

The m 6 A Methyltransferase METTL3 Promotes Translation in Human Cancer Cells

(2016) Shuibin Lin et al.   MOLECULAR CELL

The mechanism of RNA 5′ capping with NAD+, NADH and desphospho-CoA

(2016) Jeremy G. Bird et al.   NATURE

Stem cell function and stress response are controlled by protein synthesis

(2016) Sandra Blanco et al.   NATURE

The dynamic N1-methyladenosine methylome in eukaryotic messenger RNA

(2016) Dan Dominissini et al.   NATURE

Structural basis of N6-adenosine methylation by the METTL3–METTL14 complex

(2016) Xiang Wang et al.   NATURE

m6A RNA methylation promotes XIST-mediated transcriptional repression

(2016) Deepak P. Patil et al.   NATURE

Transcriptome-wide mapping reveals reversible and dynamic N1-methyladenosine methylome

(2016) Xiaoyu Li et al.   Nature Chemical Biology

m6A-LAIC-seq reveals the census and complexity of the m6A epitranscriptome

(2016) Benoit Molinie et al.   NATURE METHODS

m1A and m1G disrupt A-RNA structure through the intrinsic instability of Hoogsteen base pairs

(2016) Huiqing Zhou et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

S-Geranyl-2-thiouridine wobble nucleosides of bacterial tRNAs; chemical and enzymatic synthesis ofS-geranylated-RNAs and their physicochemical characterization

(2016) Malgorzata Sierant et al.   NUCLEIC ACIDS RESEARCH

Synthesis, base pairing and structure studies of geranylated RNA

(2016) Rui Wang et al.   NUCLEIC ACIDS RESEARCH

The ribosome prohibits the G•U wobble geometry at the first position of the codon–anticodon helix

(2016) Alexey Rozov et al.   NUCLEIC ACIDS RESEARCH

Messenger RNA modifications: Form, distribution, and function

(2016) W. V. Gilbert et al.   SCIENCE

Novel base-pairing interactions at the tRNA wobble position crucial for accurate reading of the genetic code

(2016) Alexey Rozov et al.   Nature Communications

m1A and m1G disrupt A-RNA structure through the intrinsic instability of Hoogsteen base pairs

(2016) Huiqing Zhou et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Conservation of tRNA and rRNA 5-methylcytosine in the kingdom Plantae

(2015) Alice Louise Burgess et al.   BMC PLANT BIOLOGY

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

Formation and Abundance of 5-Hydroxymethylcytosine in RNA

(2015) Sabrina M. Huber et al.   CHEMBIOCHEM

Synthesis and base pairing studies of geranylated 2-thiothymidine, a natural variant of thymidine

(2015) Rui Wang et al.   CHEMICAL COMMUNICATIONS

The tRNA methyltransferase Dnmt2 is required for accurate polypeptide synthesis during haematopoiesis

(2015) F. Tuorto et al.   EMBO JOURNAL

Structure and Thermodynamics of N6-Methyladenosine in RNA: A Spring-Loaded Base Modification

(2015) Caroline Roost et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Visualizing transient Watson–Crick-like mispairs in DNA and RNA duplexes

(2015) Isaac J. Kimsey et al.   NATURE

Structural imprints in vivo decode RNA regulatory mechanisms

(2015) Robert C. Spitale et al.   NATURE

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

(2015) Nian Liu et al.   NATURE

Chemical pulldown reveals dynamic pseudouridylation of the mammalian transcriptome

(2015) Xiaoyu Li et al.   Nature Chemical Biology

Towards a molecular understanding of microRNA-mediated gene silencing

(2015) Stefanie Jonas et al.   NATURE REVIEWS GENETICS

A common tRNA modification at an unusual location: the discovery of wyosine biosynthesis in mitochondria

(2015) Paul J. Sample et al.   NUCLEIC ACIDS RESEARCH

Effects of tRNA modification on translational accuracy depend on intrinsic codon–anticodon strength

(2015) Nandini Manickam et al.   NUCLEIC ACIDS RESEARCH

The reverse transcription signature ofN-1-methyladenosine in RNA-Seq is sequence dependent

(2015) Ralf Hauenschild et al.   NUCLEIC ACIDS RESEARCH

Contribution of dihydrouridine in folding of the D-arm in tRNA

(2015) N. Dyubankova et al.   ORGANIC & BIOMOLECULAR CHEMISTRY

m6A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation

(2015) Shay Geula et al.   SCIENCE

RNA Polymerase III Output Is Functionally Linked to tRNA Dimethyl-G26 Modification

(2015) Aneeshkumar G. Arimbasseri et al.   PLoS Genetics

Pseudouridine: Still mysterious, but never a fake (uridine)!

(2015) Felix Spenkuch et al.   RNA Biology

Transcriptome-wide Mapping Reveals Widespread Dynamic-Regulated Pseudouridylation of ncRNA and mRNA

(2014) Schraga Schwartz et al.   CELL

Conformational Preferences of Modified Nucleoside 5-Taurinomethyluridine, τm5U Occur at ‘wobble’ 34th Position in the Anticodon Loop of tRNA

(2014) Asmita S. Kamble et al.   CELL BIOCHEMISTRY AND BIOPHYSICS

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

(2014) Xu Zhao et al.   CELL RESEARCH

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

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

Aberrant methylation of tRNAs links cellular stress to neuro-developmental disorders

(2014) S. Blanco et al.   EMBO JOURNAL

Tet-Mediated Formation of 5-Hydroxymethylcytosine in RNA

(2014) Lijuan Fu et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells

(2014) Thomas M. Carlile et al.   NATURE

Methylation protects microRNAs from an AGO1-associated activity that uridylates 5' RNA fragments generated by AGO1 cleavage

(2014) G. Ren et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Diversity of human tRNA genes from the 1000-genomes project

(2014) Marc Parisien et al.   RNA Biology

Perturbation of m6A Writers Reveals Two Distinct Classes of mRNA Methylation at Internal and 5′ Sites

(2014) Schraga Schwartz et al.   Cell Reports

Methylated nucleosides in tRNA and tRNA methyltransferases

(2014) Hiroyuki Hori   Frontiers in Genetics

X-Inactivation, Imprinting, and Long Noncoding RNAs in Health and Disease

(2013) Jeannie T. Lee et al.   CELL

RNA-Methylation-Dependent RNA Processing Controls the Speed of the Circadian Clock

(2013) Jean-Michel Fustin et al.   CELL

tRNA gene copy number variation in humans

(2013) James R. Iben et al.   GENE

Backbone–Base Interactions Critical to Quantum Stabilization of Transfer RNA Anticodon Structure

(2013) Rachel N. Witts et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Identification of direct targets and modified bases of RNA cytosine methyltransferases

(2013) Vahid Khoddami et al.   NATURE BIOTECHNOLOGY

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

(2013) Jianzhao Liu et al.   Nature Chemical Biology

NSun2-Mediated Cytosine-5 Methylation of Vault Noncoding RNA Determines Its Processing into Regulatory Small RNAs

(2013) Shobbir Hussain et al.   Cell Reports

Genome Regulation by Long Noncoding RNAs

(2012) John L. Rinn et al.   Annual Review of Biochemistry

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

(2012) Kate D. Meyer et al.   CELL

Regulation of small RNA stability: methylation and beyond

(2012) Lijuan Ji et al.   CELL RESEARCH

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

RNA cytosine methylation by Dnmt2 and NSun2 promotes tRNA stability and protein synthesis

(2012) Francesca Tuorto et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Widespread occurrence of 5-methylcytosine in human coding and non-coding RNA

(2012) Jeffrey E. Squires et al.   NUCLEIC ACIDS RESEARCH

Transfer RNA modifications: nature's combinatorial chemistry playground

(2012) Jane E. Jackman et al.   Wiley Interdisciplinary Reviews-RNA

Human Mitochondrial tRNAs: Biogenesis, Function, Structural Aspects, and Diseases

(2011) Tsutomu Suzuki et al.   Annual Review of Genetics

Conformation Effects of Base Modification on the Anticodon Stem–Loop of Bacillus subtilis tRNATyr

(2011) Andria P. Denmon et al.   JOURNAL OF MOLECULAR BIOLOGY

Human tRNALys3UUU Is Pre-Structured by Natural Modifications for Cognate and Wobble Codon Binding through Keto–Enol Tautomerism

(2011) Franck A.P. Vendeix et al.   JOURNAL OF MOLECULAR BIOLOGY

Converting nonsense codons into sense codons by targeted pseudouridylation

(2011) John Karijolich et al.   NATURE

2′-O-ribose methylation of cap2 in human: function and evolution in a horizontally mobile family

(2011) Maria Werner et al.   NUCLEIC ACIDS RESEARCH

tRNA Stabilization by Modified Nucleotides

(2010) Yuri Motorin et al.   BIOCHEMISTRY

RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage

(2010) M. Schaefer et al.   GENES & DEVELOPMENT

Characterization of hMTr1, a Human Cap1 2′-O-Ribose Methyltransferase

(2010) François Bélanger et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Biosynthesis of Wyosine Derivatives in tRNA: An Ancient and Highly Diverse Pathway in Archaea

(2010) Valérie de Crécy-Lagard et al.   MOLECULAR BIOLOGY AND EVOLUTION

2′-O methylation of the viral mRNA cap evades host restriction by IFIT family members

(2010) Stephane Daffis et al.   NATURE

The RNA modification database, RNAMDB: 2011 update

(2010) W. A. Cantara et al.   NUCLEIC ACIDS RESEARCH

Spliceosomal snRNA modifications and their function

(2010) John Karijolich et al.   RNA Biology

Genome-wide analysis of N1-methyl-adenosine modification in human tRNAs

(2010) M. Saikia et al.   RNA

Cap and cap-binding proteins in the control of gene expression

(2010) Ivan Topisirovic et al.   Wiley Interdisciplinary Reviews-RNA

Functional Analysis of Human tRNA Isodecoders

(2009) Renaud Geslain et al.   JOURNAL OF MOLECULAR BIOLOGY

Long non-coding RNAs: insights into functions

(2009) Tim R. Mercer et al.   NATURE REVIEWS GENETICS

Loss of rRNA modifications in the decoding center of the ribosome impairs translation and strongly delays pre-rRNA processing

(2009) X.-h. Liang et al.   RNA

Sculpting an RNA Conformational Energy Landscape by a Methyl Group Modification—A Single-Molecule FRET Study

(2008) Andrei Yu. Kobitski et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

tRNA's modifications bring order to gene expression

(2008) Estella M Gustilo et al.   CURRENT OPINION IN MICROBIOLOGY

Bringing order to translation: the contributions of transfer RNA anticodon-domain modifications

(2008) Paul F Agris   EMBO REPORTS

Ribosome Performance Is Enhanced by a Rich Cluster of Pseudouridines in the A-site Finger Region of the Large Subunit

(2008) Dorota Piekna-Przybylska et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Modified Uridines with C5-methylene Substituents at the First Position of the tRNA Anticodon Stabilize U·G Wobble Pairing during Decoding

(2008) Shinya Kurata et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Superwobbling facilitates translation with reduced tRNA sets

(2008) Marcelo Rogalski et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Synthesis and investigation of the 5-formylcytidine modified, anticodon stem and loop of the human mitochondrial tRNAMet

(2008) Hrvoje Lusic et al.   NUCLEIC ACIDS RESEARCH

tRNAdb 2009: compilation of tRNA sequences and tRNA genes

(2008) F. Juhling et al.   NUCLEIC ACIDS RESEARCH

Effects of N2,N2 -dimethylguanosine on RNA structure and stability: Crystal structure of an RNA duplex with tandem m2 2G:A pairs

(2008) P. S. Pallan et al.   RNA