Understanding RNA modifications: the promises and technological bottlenecks of the ‘epitranscriptome’
Published 2017 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Understanding RNA modifications: the promises and technological bottlenecks of the ‘epitranscriptome’
Authors
Keywords
-
Journal
Open Biology
Volume 7, Issue 5, Pages 170077
Publisher
The Royal Society
Online
2017-05-31
DOI
10.1098/rsob.170077
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Editing and methylation at a single site by functionally interdependent activities
- (2017) Mary Anne T. Rubio et al. NATURE
- 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
- Transcriptome-Wide Mapping of RNA 5-Methylcytosine in Arabidopsis mRNAs and Noncoding RNAs
- (2017) Rakesh David et al. PLANT CELL
- Single-Cell and Single-Molecule Analysis of Gene Expression Regulation
- (2016) Maria Vera et al. Annual Review of Genetics
- Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data
- (2016) Melanie Schirmer et al. BMC BIOINFORMATICS
- Complex regulation of ADAR-mediated RNA-editing across tissues
- (2016) Melanie A. Huntley et al. BMC GENOMICS
- Programmable RNA Tracking in Live Cells with CRISPR/Cas9
- (2016) David A. Nelles et al. CELL
- ALKBH1-Mediated tRNA Demethylation Regulates Translation
- (2016) Fange Liu et al. CELL
- Nucleoside modifications in the regulation of gene expression: focus on tRNA
- (2016) Markus Duechler et al. CELLULAR AND MOLECULAR LIFE SCIENCES
- RNA nanomedicines: the next generation drugs?
- (2016) Manu Smriti Singh et al. CURRENT OPINION IN BIOTECHNOLOGY
- RNA epigenetics — chemical messages for posttranscriptional gene regulation
- (2016) Ian A Roundtree et al. CURRENT OPINION IN CHEMICAL BIOLOGY
- Experience-Dependent Accumulation of N 6 -Methyladenosine in the Prefrontal Cortex Is Associated with Memory Processes in Mice
- (2016) Jocelyn Widagdo et al. JOURNAL OF NEUROSCIENCE
- Pseudouridylation meets next-generation sequencing
- (2016) Maryam Zaringhalam et al. METHODS
- High-throughput sequencing for 1-methyladenosine (m1A) mapping in RNA
- (2016) Lyudmil Tserovski et al. METHODS
- The m 6 A Methyltransferase METTL3 Promotes Translation in Human Cancer Cells
- (2016) Shuibin Lin et al. MOLECULAR CELL
- The dynamic N1-methyladenosine methylome in eukaryotic messenger RNA
- (2016) Dan Dominissini et al. NATURE
- Reversible methylation of m6Am in the 5′ cap controls mRNA stability
- (2016) Jan Mauer 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
- Dynamic regulation of RNA editing in human brain development and disease
- (2016) Taeyoung Hwang et al. NATURE NEUROSCIENCE
- Efficient targeted DNA methylation with chimeric dCas9–Dnmt3a–Dnmt3L methyltransferase
- (2016) Peter Stepper et al. NUCLEIC ACIDS RESEARCH
- Adenosine to Inosine editing frequency controlled by splicing efficiency
- (2016) Konstantin Licht et al. NUCLEIC ACIDS RESEARCH
- Glutamate-induced RNA localization and translation in neurons
- (2016) Young J. Yoon et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The notorious R.N.A. in the spotlight - drug or target for the treatment of disease
- (2016) Philipp Reautschnig et al. RNA Biology
- Cracking the epitranscriptome
- (2016) Schraga Schwartz RNA
- Metabolic Enzymes Moonlighting in the Nucleus: Metabolic Regulation of Gene Transcription
- (2016) Aristeidis E. Boukouris et al. TRENDS IN BIOCHEMICAL SCIENCES
- Genome recoding by tRNA modifications
- (2016) Francesca Tuorto et al. Open Biology
- Going global: the new era of mapping modifications in RNA
- (2016) Patrick A. Limbach et al. Wiley Interdisciplinary Reviews-RNA
- 5′ UTR m6A Promotes Cap-Independent Translation
- (2015) Kate D. Meyer et al. CELL
- ADAR1 is required for differentiation and neural induction by regulating microRNA processing in a catalytically independent manner
- (2015) Tian Chen et al. CELL RESEARCH
- A majority of m6A residues are in the last exons, allowing the potential for 3′ UTR regulation
- (2015) Shengdong Ke et al. GENES & DEVELOPMENT
- Isoforms of RNA-Editing Enzyme ADAR1 Independently Control Nucleic Acid Sensor MDA5-Driven Autoimmunity and Multi-organ Development
- (2015) Kathleen Pestal et al. IMMUNITY
- Circular RNAs in the Mammalian Brain Are Highly Abundant, Conserved, and Dynamically Expressed
- (2015) Agnieszka Rybak-Wolf et al. MOLECULAR CELL
- Reproducibility crisis: Blame it on the antibodies
- (2015) Monya Baker NATURE
- Dynamic m6A mRNA methylation directs translational control of heat shock response
- (2015) Jun Zhou et al. NATURE
- Chemical pulldown reveals dynamic pseudouridylation of the mammalian transcriptome
- (2015) Xiaoyu Li et al. Nature Chemical Biology
- Single-nucleotide-resolution mapping of m6A and m6Am throughout the transcriptome
- (2015) Bastian Linder et al. NATURE METHODS
- Dynamic modulation of Dnmt2-dependent tRNA methylation by the micronutrient queuine
- (2015) Martin Müller et al. NUCLEIC ACIDS RESEARCH
- Nucleotide modifications within bacterial messenger RNAs regulate their translation and are able to rewire the genetic code
- (2015) Thomas Philipp Hoernes et al. NUCLEIC ACIDS RESEARCH
- RNA editing by ADAR1 prevents MDA5 sensing of endogenous dsRNA as nonself
- (2015) B. J. Liddicoat et al. SCIENCE
- Sperm tsRNAs contribute to intergenerational inheritance of an acquired metabolic disorder
- (2015) Q. Chen et al. SCIENCE
- m6A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation
- (2015) Shay Geula et al. SCIENCE
- ‘View From A Bridge’: A New Perspective on Eukaryotic rRNA Base Modification
- (2015) Sunny Sharma et al. TRENDS IN BIOCHEMICAL SCIENCES
- Are RNAi and miRNA therapeutics truly dead?
- (2015) João Conde et al. TRENDS IN BIOTECHNOLOGY
- Metabolic Enzymes Enjoying New Partnerships as RNA-Binding Proteins
- (2015) Alfredo Castello et al. TRENDS IN ENDOCRINOLOGY AND METABOLISM
- Profiling RNA editing in human tissues: towards the inosinome Atlas
- (2015) Ernesto Picardi et al. Scientific Reports
- The Epitranscriptome and Innate Immunity
- (2015) Mary A. O’Connell et al. PLoS Genetics
- ADAR1, inosine and the immune sensing system: distinguishing self from non-self
- (2015) Brian J. Liddicoat et al. Wiley Interdisciplinary Reviews-RNA
- Modify or die? - RNA modification defects in metazoans
- (2015) L Peter Sarin et al. RNA Biology
- Profiling of Ribose Methylations in RNA by High-Throughput Sequencing
- (2014) Ulf Birkedal et al. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
- High-ResolutionN6-Methyladenosine (m6A) Map Using Photo-Crosslinking-Assisted m6A Sequencing
- (2014) Kai Chen et al. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
- The Pivotal Regulatory Landscape of RNA Modifications
- (2014) Sheng Li et al. Annual Review of Genomics and Human 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
- Harnessing CRISPR-Cas9 immunity for genetic engineering
- (2014) Emmanuelle Charpentier et al. CURRENT OPINION IN MICROBIOLOGY
- tRNA modifications regulate translation during cellular stress
- (2014) Chen Gu 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
- Tet-Mediated Formation of 5-Hydroxymethylcytosine in RNA
- (2014) Lijuan Fu et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- Reovirus-mediated induction of ADAR1 (p150) minimally alters RNA editing patterns in discrete brain regions
- (2014) Jennifer L. Hood et al. MOLECULAR AND CELLULAR NEUROSCIENCE
- Pseudouridine profiling reveals regulated mRNA pseudouridylation in yeast and human cells
- (2014) Thomas M. Carlile et al. NATURE
- Obesity-associated variants within FTO form long-range functional connections with IRX3
- (2014) Scott Smemo et al. NATURE
- N6-methyladenosine modification destabilizes developmental regulators in embryonic stem cells
- (2014) Yang Wang et al. NATURE CELL BIOLOGY
- Transcriptome-wide target profiling of RNA cytosine methyltransferases using the mechanism-based enrichment procedure Aza-IP
- (2014) Vahid Khoddami et al. Nature Protocols
- Emerging roles of tRNA in adaptive translation, signalling dynamics and disease
- (2014) Sebastian Kirchner et al. NATURE REVIEWS GENETICS
- The dynamic epitranscriptome: N6-methyladenosine and gene expression control
- (2014) Kate D. Meyer et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Single-cell RNA-seq: advances and future challenges
- (2014) Antoine-Emmanuel Saliba et al. NUCLEIC ACIDS RESEARCH
- Absolute and relative quantification of RNA modifications via biosynthetic isotopomers
- (2014) Stefanie Kellner et al. NUCLEIC ACIDS RESEARCH
- A complete landscape of post-transcriptional modifications in mammalian mitochondrial tRNAs
- (2014) T. Suzuki et al. NUCLEIC ACIDS RESEARCH
- Transcriptome-Wide Mapping of Pseudouridines: Pseudouridine Synthases Modify Specific mRNAs in S. cerevisiae
- (2014) Alexander F. Lovejoy et al. PLoS One
- Mis-targeted methylation in rRNA can severely impair ribosome synthesis and activity
- (2014) Ben Liu et al. RNA Biology
- Genomic analysis of RNA localization
- (2014) J Matthew Taliaferro et al. RNA Biology
- The RNA-Editing Enzyme ADAR1 Controls Innate Immune Responses to RNA
- (2014) Niamh M. Mannion et al. Cell Reports
- Genetic Background Drives Transcriptional Variation in Human Induced Pluripotent Stem Cells
- (2014) Foad Rouhani et al. PLoS Genetics
- tRNA modifications: Necessary for correct tRNA-derived fragments during the recovery from stress?
- (2013) Zeljko Durdevic et al. BIOESSAYS
- High-Resolution Mapping Reveals a Conserved, Widespread, Dynamic mRNA Methylation Program in Yeast Meiosis
- (2013) Schraga Schwartz et al. CELL
- A-to-I RNA editing occurs at over a hundred million genomic sites, located in a majority of human genes
- (2013) L. Bazak et al. GENOME RESEARCH
- From single-cell to cell-pool transcriptomes: Stochasticity in gene expression and RNA splicing
- (2013) G. K. Marinov et al. GENOME RESEARCH
- The Mouse Cytosine-5 RNA Methyltransferase NSun2 Is a Component of the Chromatoid Body and Required for Testis Differentiation
- (2013) S. Hussain et al. MOLECULAR AND CELLULAR BIOLOGY
- Nanopore-Based Identification of Individual Nucleotides for Direct RNA Sequencing
- (2013) Mariam Ayub et al. NANO LETTERS
- Identification of direct targets and modified bases of RNA cytosine methyltransferases
- (2013) Vahid Khoddami et al. NATURE BIOTECHNOLOGY
- mRNA expression, splicing and editing in the embryonic and adult mouse cerebral cortex
- (2013) Allissa A Dillman et al. NATURE NEUROSCIENCE
- A high-throughput screen to identify enhancers of ADAR-mediated RNA-editing
- (2013) Wojciech Garncarz et al. RNA Biology
- Probing N6-methyladenosine RNA modification status at single nucleotide resolution in mRNA and long noncoding RNA
- (2013) N. Liu et al. RNA
- NSun2-Mediated Cytosine-5 Methylation of Vault Noncoding RNA Determines Its Processing into Regulatory Small RNAs
- (2013) Shobbir Hussain et al. Cell Reports
- Mapping and significance of the mRNA methylome
- (2013) Tennille Sibbritt et al. Wiley Interdisciplinary Reviews-RNA
- Mutation in NSUN2, which Encodes an RNA Methyltransferase, Causes Autosomal-Recessive Intellectual Disability
- (2012) Muzammil Ahmad Khan et al. AMERICAN JOURNAL OF HUMAN GENETICS
- Comprehensive Analysis of mRNA Methylation Reveals Enrichment in 3′ UTRs and near Stop Codons
- (2012) Kate D. Meyer et al. CELL
- Increased tRNA modification and gene-specific codon usage regulate cell cycle progression during the DNA damage response
- (2012) Ashish Patil et al. CELL CYCLE
- The 2′-O-methylation status of a single guanosine controls transfer RNA–mediated Toll-like receptor 7 activation or inhibition
- (2012) Stefanie Jöckel et al. JOURNAL OF EXPERIMENTAL MEDICINE
- Identification of modifications in microbial, native tRNA that suppress immunostimulatory activity
- (2012) Stefanie Gehrig et al. JOURNAL OF EXPERIMENTAL MEDICINE
- 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
- Quantitative Assessment of Chromatin Immunoprecipitation Grade Antibodies Directed against Histone Modifications Reveals Patterns of Co-occurring Marks on Histone Protein Molecules
- (2012) Sally E. Peach et al. MOLECULAR & CELLULAR PROTEOMICS
- 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
- A subcomplex of human mitochondrial RNase P is a bifunctional methyltransferase—extensive moonlighting in mitochondrial tRNA biogenesis
- (2012) Elisa Vilardo et al. NUCLEIC ACIDS RESEARCH
- 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
- RNA mediated toll-like receptor stimulation in health and disease
- (2012) Alexander H. Dalpke et al. RNA Biology
- tRNAHis 5-methylcytidine levels increase in response to several growth arrest conditions in Saccharomyces cerevisiae
- (2012) M. A. Preston et al. RNA
- Reprogramming of tRNA modifications controls the oxidative stress response by codon-biased translation of proteins
- (2012) Clement T.Y. Chan et al. Nature Communications
- RNA Methylation by the MIS Complex Regulates a Cell Fate Decision in Yeast
- (2012) Sudeep D. Agarwala et al. PLoS Genetics
- The birth of the Epitranscriptome: deciphering the function of RNA modifications
- (2012) Yogesh Saletore et al. GENOME BIOLOGY
- Novel Modifications in RNA
- (2011) Kelly Phelps et al. ACS Chemical Biology
- Frequent Increased Gene Copy Number and High Protein Expression of tRNA (Cytosine-5-)-Methyltransferase (NSUN2) in Human Cancers
- (2011) Mayumi Okamoto et al. DNA AND CELL BIOLOGY
- Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq
- (2011) S. Islam et al. GENOME RESEARCH
- Expression of therapeutic proteins after delivery of chemically modified mRNA in mice
- (2011) Michael S D Kormann et al. NATURE BIOTECHNOLOGY
- N6-Methyladenosine in nuclear RNA is a major substrate of the obesity-associated FTO
- (2011) Guifang Jia et al. Nature Chemical Biology
- Ribose 2′-O-methylation provides a molecular signature for the distinction of self and non-self mRNA dependent on the RNA sensor Mda5
- (2011) Roland Züst et al. NATURE IMMUNOLOGY
- Generating the optimal mRNA for therapy: HPLC purification eliminates immune activation and improves translation of nucleoside-modified, protein-encoding mRNA
- (2011) Katalin Karikó et al. NUCLEIC ACIDS RESEARCH
- Inosine-Containing RNA Is a Novel Innate Immune Recognition Element and Reduces RSV Infection
- (2011) Jie-ying Liao et al. PLoS One
- Editing of human KV1.1 channel mRNAs disrupts binding of the N-terminus tip at the intracellular cavity
- (2011) Carlos Gonzalez et al. Nature Communications
- The RNA–Methyltransferase Misu (NSun2) Poises Epidermal Stem Cells to Differentiate
- (2011) Sandra Blanco et al. PLoS Genetics
- RNA nucleotide methylation
- (2011) Yuri Motorin et al. Wiley Interdisciplinary Reviews-RNA
- Functions and Regulation of RNA Editing by ADAR Deaminases
- (2010) Kazuko Nishikura Annual Review of Biochemistry
- U2 snRNA is inducibly pseudouridylated at novel sites by Pus7p and snR81 RNP
- (2010) Guowei Wu et al. EMBO JOURNAL
- When ribosomes go bad: diseases of ribosome biogenesis
- (2010) Emily F. Freed et al. Molecular BioSystems
- Grand Challenge Commentary: RNA epigenetics?
- (2010) Chuan He Nature Chemical Biology
- An assessment of histone-modification antibody quality
- (2010) Thea A Egelhofer et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Mice with altered serotonin 2C receptor RNA editing display characteristics of Prader–Willi syndrome
- (2010) Michael V. Morabito et al. NEUROBIOLOGY OF DISEASE
- The Bowen–Conradi syndrome protein Nep1 (Emg1) has a dual role in eukaryotic ribosome biogenesis, as an essential assembly factor and in the methylation of Ψ1191 in yeast 18S rRNA
- (2010) Britta Meyer et al. NUCLEIC ACIDS RESEARCH
- Detection of RNA modifications
- (2010) Stefanie Kellner et al. RNA Biology
- Regulation of Na+/K+ ATPase Transport Velocity by RNA Editing
- (2010) Claudia Colina et al. PLOS BIOLOGY
- A Quantitative Systems Approach Reveals Dynamic Control of tRNA Modifications during Cellular Stress
- (2010) Clement T. Y. Chan et al. PLoS Genetics
- Loss-of-Function Mutation in the Dioxygenase-Encoding FTO Gene Causes Severe Growth Retardation and Multiple Malformations
- (2009) Sarah Boissel et al. AMERICAN JOURNAL OF HUMAN GENETICS
- Exploring Chemical Modifications for siRNA Therapeutics: A Structural and Functional Outlook
- (2009) Siddharth Shukla et al. ChemMedChem
- RNAi-based therapeutics-current status, challenges and prospects
- (2009) Katrin Tiemann et al. EMBO Molecular Medicine
- Ubiquitin-related modifier Urm1 acts as a sulphur carrier in thiolation of eukaryotic transfer RNA
- (2009) Sebastian Leidel et al. NATURE
- Meta-analysis of small RNA-sequencing errors reveals ubiquitous post-transcriptional RNA modifications
- (2009) H. Alexander Ebhardt et al. NUCLEIC ACIDS RESEARCH
- Small RNAs derived from snoRNAs
- (2009) R. J. Taft et al. RNA
- Identification of 8-methyladenosine as the modification catalyzed by the radical SAM methyltransferase Cfr that confers antibiotic resistance in bacteria
- (2009) A. M. B. Giessing et al. RNA
- Genome-Wide Identification of Human RNA Editing Sites by Parallel DNA Capturing and Sequencing
- (2009) J. B. Li et al. SCIENCE
- Developmental Modulation of GABAA Receptor Function by RNA Editing
- (2008) E. Y. Rula et al. JOURNAL OF NEUROSCIENCE
- Single-RNA counting reveals alternative modes of gene expression in yeast
- (2008) Daniel Zenklusen et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- RNA cytosine methylation analysis by bisulfite sequencing
- (2008) M. Schaefer et al. NUCLEIC ACIDS RESEARCH
- Specificity of ADAR-mediated RNA editing in newly identified targets
- (2008) E. M. Riedmann et al. RNA
- tRNA cleavage is a conserved response to oxidative stress in eukaryotes
- (2008) D. M. Thompson et al. RNA
Find the ideal target journal for your manuscript
Explore over 38,000 international journals covering a vast array of academic fields.
SearchAdd your recorded webinar
Do you already have a recorded webinar? Grow your audience and get more views by easily listing your recording on Peeref.
Upload Now