The RNA modification landscape in human disease

m6A-dependent maternal mRNA clearance facilitates zebrafish maternal-to-zygotic transition

(2017) Boxuan Simen Zhao et al.   NATURE

Epitranscriptome sequencing technologies: decoding RNA modifications

(2017) Xiaoyu Li et al.   NATURE METHODS

Detecting DNA cytosine methylation using nanopore sequencing

(2017) Jared T Simpson et al.   NATURE METHODS

Mapping DNA methylation with high-throughput nanopore sequencing

(2017) Arthur C Rand et al.   NATURE METHODS

Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples

(2017) Joshua Quick et al.   Nature Protocols

Detecting RNA modifications in the epitranscriptome: predict and validate

(2017) Mark Helm et al.   NATURE REVIEWS GENETICS

Charting the unknown epitranscriptome

(2017) Eva Maria Novoa et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Lost in Translation: Defects in Transfer RNA Modifications and Neurological Disorders

(2017) Andrea Bednářová et al.   Frontiers in Molecular Neuroscience

DeepNano: Deep recurrent neural networks for base calling in MinION nanopore reads

(2017) Vladimír Boža et al.   PLoS One

The emerging epitranscriptomics of long noncoding RNAs

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

Nanocall: an open source basecaller for Oxford Nanopore sequencing data

(2016) Matei David et al.   BIOINFORMATICS

ALKBH1-Mediated tRNA Demethylation Regulates Translation

(2016) Fange Liu et al.   CELL

Elp3 links tRNA modification to IRES-dependent translation of LEF1 to sustain metastasis in breast cancer

(2016) Sylvain Delaunay et al.   JOURNAL OF EXPERIMENTAL MEDICINE

m6A potentiates Sxl alternative pre-mRNA splicing for robust Drosophila sex determination

(2016) Irmgard U. Haussmann et al.   NATURE

Real-time, portable genome sequencing for Ebola surveillance

(2016) Joshua Quick et al.   NATURE

m6A modulates neuronal functions and sex determination in Drosophila

(2016) Tina Lence et al.   NATURE

The dynamic N1-methyladenosine methylome in eukaryotic messenger RNA

(2016) Dan Dominissini et al.   NATURE

Evolving insights into RNA modifications and their functional diversity in the brain

(2016) Sarah Nainar et al.   NATURE NEUROSCIENCE

RNA modifications: what have we learned and where are we headed?

(2016) Michaela Frye et al.   NATURE REVIEWS GENETICS

Post-transcriptional gene regulation by mRNA modifications

(2016) Boxuan Simen Zhao et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

tRNA anticodon loop modifications ensure protein homeostasis and cell morphogenesis in yeast

(2016) Roland Klassen et al.   NUCLEIC ACIDS RESEARCH

Cracking the epitranscriptome

(2016) Schraga Schwartz   RNA

Transcriptome-wide distribution and function of RNA hydroxymethylcytosine

(2016) B. Delatte et al.   SCIENCE

Messenger RNA modifications: Form, distribution, and function

(2016) W. V. Gilbert et al.   SCIENCE

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

(2016) Mikaela Behm et al.   TRENDS IN GENETICS

Oxford Nanopore MinION Sequencing and Genome Assembly

(2016) Hengyun Lu et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

The origin of the ADAR gene family and animal RNA editing

(2015) Laura F Grice et al.   BMC EVOLUTIONARY BIOLOGY

Optimization of Codon Translation Rates via tRNA Modifications Maintains Proteome Integrity

(2015) Danny D. Nedialkova et al.   CELL

N6-methyladenosine Modulates Messenger RNA Translation Efficiency

(2015) Xiao Wang et al.   CELL

A cautionary tale: the non-causal association between type 2 diabetes risk SNP, rs7756992, and levels of non-coding RNA, CDKAL1-v1

(2015) Jonathan M. Locke et al.   DIABETOLOGIA

An association study of the m6A genes with major depressive disorder in Chinese Han population

(2015) Tingfu Du et al.   JOURNAL OF AFFECTIVE DISORDERS

Successful test launch for nanopore sequencing

(2015) Nicholas J Loman et al.   NATURE METHODS

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

(2015) Bastian Linder et al.   NATURE METHODS

A complete bacterial genome assembled de novo using only nanopore sequencing data

(2015) Nicholas J Loman et al.   NATURE METHODS

Improved data analysis for the MinION nanopore sequencer

(2015) Miten Jain et al.   NATURE METHODS

Autophagy in spinal motor neurons of conditional ADAR2-knockout mice: An implication for a role of calcium in increased autophagy flux in ALS

(2015) Soichi Sasaki et al.   NEUROSCIENCE LETTERS

FTO Obesity Variant Circuitry and Adipocyte Browning in Humans

(2015) Melina Claussnitzer et al.   NEW ENGLAND JOURNAL OF MEDICINE

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

(2015) Ralf Hauenschild et al.   NUCLEIC ACIDS RESEARCH

RNA modification: the Golden Period 1995–2015

(2015) Henri Grosjean   RNA

Sperm tsRNAs contribute to intergenerational inheritance of an acquired metabolic disorder

(2015) Q. Chen et al.   SCIENCE

Biogenesis and function of tRNA fragments during sperm maturation and fertilization in mammals

(2015) U. Sharma et al.   SCIENCE

Profiling RNA editing in human tissues: towards the inosinome Atlas

(2015) Ernesto Picardi et al.   Scientific Reports

Trm9-Catalyzed tRNA Modifications Regulate Global Protein Expression by Codon-Biased Translation

(2015) Wenjun Deng et al.   PLoS Genetics

Modulation of microRNA editing, expression and processing by ADAR2 deaminase in glioblastoma

(2015) Sara Tomaselli et al.   GENOME BIOLOGY

PacBio Sequencing and Its Applications

(2015) Anthony Rhoads et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

The Role of a Novel TRMT1 Gene Mutation and Rare GRM1 Gene Defect in Intellectual Disability in Two Azeri Families

(2015) Behzad Davarniya et al.   PLoS One

Modify or die? - RNA modification defects in metazoans

(2015) L Peter Sarin et al.   RNA Biology

The Pivotal Regulatory Landscape of RNA Modifications

(2014) Sheng Li et al.   Annual Review of Genomics and Human Genetics

Association Analysis of IGF2BP2, KCNJ11, and CDKAL1 Polymorphisms with Type 2 Diabetes Mellitus in a Moroccan Population: A Case–Control Study and Meta-analysis

(2014) Houda Benrahma et al.   BIOCHEMICAL GENETICS

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

(2014) Schraga Schwartz et al.   CELL

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

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

A System of RNA Modifications and Biased Codon Use Controls Cellular Stress Response at the Level of Translation

(2014) Peter C. Dedon et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Dynamic RNA modifications in disease

(2014) Arne Klungland et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

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

(2014) S. Blanco et al.   EMBO JOURNAL

Dynamic RNA Modifications in Posttranscriptional Regulation

(2014) Xiao Wang et al.   MOLECULAR CELL

Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells

(2014) Thomas M. Carlile et al.   NATURE

N6-methyladenosine modification destabilizes developmental regulators in embryonic stem cells

(2014) Yang Wang et al.   NATURE CELL BIOLOGY

Quantitative analysis of ribonucleoside modifications in tRNA by HPLC-coupled mass spectrometry

(2014) Dan Su et al.   Nature Protocols

The rise of regulatory RNA

(2014) Kevin V. Morris et al.   NATURE REVIEWS GENETICS

Hippocampus-specific deficiency in RNA editing of GluA2 in Alzheimer's disease

(2014) Inna Gaisler-Salomon et al.   NEUROBIOLOGY OF AGING

Rational experiment design for sequencing-based RNA structure mapping

(2014) Sharon Aviran et al.   RNA

An evolutionary approach uncovers a diverse response of tRNA 2-thiolation to elevated temperatures in yeast

(2014) Fiona Alings et al.   RNA

Functional importance of Ψ38and Ψ39in distinct tRNAs, amplified for tRNAGln(UUG)by unexpected temperature sensitivity of the s2U modification in yeast

(2014) Lu Han et al.   RNA

Chemical Inhibition of NAT10 Corrects Defects of Laminopathic Cells

(2014) D. Larrieu et al.   SCIENCE

Role of tRNA modifications in human diseases

(2014) Adrian Gabriel Torres et al.   TRENDS IN MOLECULAR MEDICINE

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

(2014) Schraga Schwartz et al.   Cell Reports

Contribution ofCDKAL1rs7756992 andIGF2BP2rs4402960 polymorphisms in type 2 diabetes, diabetic complications, obesity risk and hypertension in the Tunisian population 在突尼斯人群中，CDKAL1rs7756992与IGF2BP2rs4402960的多态性对2型糖尿病、糖尿病并发症、肥胖风险以及高血压的影响

(2014) Khaled Lasram et al.   Journal of Diabetes

A High-Throughput Quantitative Approach Reveals More Small RNA Modifications in Mouse Liver and Their Correlation with Diabetes

(2013) Menghong Yan et al.   ANALYTICAL CHEMISTRY

High-Resolution Mapping Reveals a Conserved, Widespread, Dynamic mRNA Methylation Program in Yeast Meiosis

(2013) Schraga Schwartz et al.   CELL

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

(2013) Jean-Michel Fustin et al.   CELL

Posttranscriptional RNA Modifications: Playing Metabolic Games in a Cell’s Chemical Legoland

(2013) Mark Helm et al.   CHEMISTRY & BIOLOGY

Whole exome sequencing unravels disease-causing genes in consanguineous families in Qatar

(2013) S. Fahiminiya et al.   CLINICAL GENETICS

A human tRNA methyltransferase 9-like protein prevents tumour growth by regulating LIN9 and HIF1-α

(2013) Ulrike Begley et al.   EMBO Molecular Medicine

Expression of NOL1/NOP2/sun domain (Nsun) RNA methyltransferase family genes in early mouse embryogenesis

(2013) Lijun Chi et al.   GENE EXPRESSION PATTERNS

Identification of direct targets and modified bases of RNA cytosine methyltransferases

(2013) Vahid Khoddami et al.   NATURE BIOTECHNOLOGY

Identifying RNA editing sites using RNA sequencing data alone

(2013) Gokul Ramaswami et al.   NATURE METHODS

DNA methylation regulates associative reward learning

(2013) Jeremy J Day et al.   NATURE NEUROSCIENCE

The fat mass and obesity associated gene (Fto) regulates activity of the dopaminergic midbrain circuitry

(2013) Martin E Hess et al.   NATURE NEUROSCIENCE

Structure and function of long noncoding RNAs in epigenetic regulation

(2013) Tim R Mercer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

HAMR: high-throughput annotation of modified ribonucleotides

(2013) P. Ryvkin et al.   RNA

Loss of a Conserved tRNA Anticodon Modification Perturbs Cellular Signaling

(2013) Boris Zinshteyn et al.   PLoS Genetics

Characterizing 5-methylcytosine in the mammalian epitranscriptome

(2013) Shobbir Hussain et al.   GENOME BIOLOGY

Mutations in NSUN2 Cause Autosomal- Recessive Intellectual Disability

(2012) Lia Abbasi-Moheb et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Method for Comparative Analysis of Ribonucleic Acids Using Isotope Labeling and Mass Spectrometry

(2012) Siwei Li et al.   ANALYTICAL CHEMISTRY

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

(2012) Kate D. Meyer et al.   CELL

Whole exome sequencing identifies a splicing mutation inNSUN2as a cause of a Dubowitz-like syndrome

(2012) Fernando Jose Martinez et al.   JOURNAL OF MEDICAL GENETICS

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

(2012) Guanqun Zheng et al.   MOLECULAR CELL

Landscape of transcription in human cells

(2012) Sarah Djebali et al.   NATURE

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

MODOMICS: a database of RNA modification pathways—2013 update

(2012) Magdalena A. Machnicka et al.   NUCLEIC ACIDS RESEARCH

Translational infidelity-induced protein stress results from a deficiency in Trm9-catalyzed tRNA modifications

(2012) Ashish Patil et al.   RNA Biology

Transcriptome-wide identification of A > I RNA editing sites by inosine specific cleavage

(2012) P. B. Cattenoz et al.   RNA

The birth of the Epitranscriptome: deciphering the function of RNA modifications

(2012) Yogesh Saletore et al.   GENOME BIOLOGY

The central role of RNA in human development and cognition

(2011) John S. Mattick   FEBS LETTERS

Mass Spectrometry-Based Quantification of Pseudouridine in RNA

(2011) Balasubrahmanyam Addepalli et al.   JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY

Deep sequencing reveals 50 novel genes for recessive cognitive disorders

(2011) Hossein Najmabadi et al.   NATURE

N6-Methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO

(2011) Guifang Jia et al.   Nature Chemical Biology

Profound downregulation of the RNA editing enzyme ADAR2 in ALS spinal motor neurons

(2011) Takuto Hideyama et al.   NEUROBIOLOGY OF DISEASE

RNA as the substrate for epigenome-environment interactions

(2010) John S. Mattick   BIOESSAYS

Long non-coding RNAs in nervous system function and disease

(2010) Irfan A. Qureshi et al.   BRAIN RESEARCH

Detecting low-level synthesis impurities in modified phosphorothioate oligonucleotides using liquid chromatography–high resolution mass spectrometry

(2010) Irena Nikcevic et al.   INTERNATIONAL JOURNAL OF MASS SPECTROMETRY

Grand Challenge Commentary: RNA epigenetics?

(2010) Chuan He   Nature Chemical Biology

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

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

The RNA modification database, RNAMDB: 2011 update

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

Adenosine-to-inosine RNA editing shapes transcriptome diversity in primates

(2010) N. Paz-Yaacov et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spliceosomal snRNA modifications and their function

(2010) John Karijolich et al.   RNA Biology

RNA metabolism and the pathogenesis of motor neuron diseases

(2010) Robin Lemmens et al.   TRENDS IN NEUROSCIENCES

A Quantitative Systems Approach Reveals Dynamic Control of tRNA Modifications during Cellular Stress

(2010) Clement T. Y. Chan et al.   PLoS Genetics

Mutation of a Gene Essential for Ribosome Biogenesis, EMG1, Causes Bowen-Conradi Syndrome

(2009) Joy Armistead et al.   AMERICAN JOURNAL OF HUMAN GENETICS

An association study of 45 folate-related genes in spina bifida: Involvement ofcubilin(CUBN) andtRNA aspartic acid methyltransferase 1(TRDMT1)

(2009) Barbara Franke et al.   BIRTH DEFECTS RESEARCH PART A-CLINICAL AND MOLECULAR TERATOLOGY

RNA cytosine methylation analysis by bisulfite sequencing

(2008) M. Schaefer et al.   NUCLEIC ACIDS RESEARCH

RNA editing, DNA recoding and the evolution of human cognition

(2008) John S. Mattick et al.   TRENDS IN NEUROSCIENCES