m6A and YTHDF proteins contribute to the localization of select neuronal mRNAs

scDART-seq reveals distinct m6A signatures and mRNA methylation heterogeneity in single cells

(2022) Matthew Tegowski et al.   MOLECULAR CELL

Subcellular sequencing of single neurons reveals the dendritic transcriptome of GABAergic interneurons

(2021) Julio D Perez et al.   eLife

RNA transport and local translation in neurodevelopmental and neurodegenerative disease

(2021) Michael S. Fernandopulle et al.   NATURE NEUROSCIENCE

STREME: accurate and versatile sequence motif discovery

(2021) Timothy L Bailey   BIOINFORMATICS

Monosomes actively translate synaptic mRNAs in neuronal processes

(2020) Anne Biever et al.   SCIENCE

Microtubule‐associated protein 2 mediates induction of long‐term potentiation in hippocampal neurons

(2020) Yoonju Kim et al.   FASEB JOURNAL

m6A-binding YTHDF proteins promote stress granule formation

(2020) Ye Fu et al.   Nature Chemical Biology

The regulation and functions of DNA and RNA G-quadruplexes

(2020) Dhaval Varshney et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A Unified Model for the Function of YTHDF Proteins in Regulating m6A-Modified mRNA

(2020) Sara Zaccara et al.   CELL

A large-scale binding and functional map of human RNA-binding proteins

(2020) Eric L. Van Nostrand et al.   NATURE

FMRP promotes RNA localization to neuronal projections through interactions between its RGG domain and G-quadruplex RNA sequences

(2020) Raeann Goering et al.   eLife

A 5′ UTR GGN repeat controls localisation and translation of a potassium leak channel mRNA through G-quadruplex formation

(2020) Connor J Maltby et al.   NUCLEIC ACIDS RESEARCH

RNA N6-Methyladenosine and the Regulation of RNA Localization and Function in the Brain

(2020) Sachithrani U. Madugalle et al.   TRENDS IN NEUROSCIENCES

The functional organization of axonal mRNA transport and translation

(2020) Irene Dalla Costa et al.   NATURE REVIEWS NEUROSCIENCE

G-Quadruplexes in RNA Biology: Recent Advances and Future Directions

(2020) Leïla Dumas et al.   TRENDS IN BIOCHEMICAL SCIENCES

Ythdf m6A Readers Function Redundantly during Zebrafish Development

(2020) Cassandra Kontur et al.   Cell Reports

Deciphering the “m6A Code” via Antibody-Independent Quantitative Profiling

(2019) Miguel Angel Garcia-Campos et al.   CELL

m6A enhances the phase separation potential of mRNA

(2019) Ryan J. Ries et al.   NATURE

FMRP Modulates Neural Differentiation through m6A-Dependent mRNA Nuclear Export

(2019) Brittany M. Edens et al.   Cell Reports

The travels of mRNAs in neurons: do they know where they are going?

(2019) Sulagna Das et al.   CURRENT OPINION IN NEUROBIOLOGY

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

(2019) Kate D. Meyer   NATURE METHODS

Reading, writing and erasing mRNA methylation

(2019) Sara Zaccara et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The epitranscriptome and synaptic plasticity

(2019) Mathieu N Flamand et al.   CURRENT OPINION IN NEUROBIOLOGY

m 6 A facilitates YTHDF‐independent phase separation

(2019) Si‐Yu Liu et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

N6-methyladenosine RNA modification regulates embryonic neural stem cell self-renewal through histone modifications

(2018) Yang Wang et al.   NATURE NEUROSCIENCE

Synaptic N6-methyladenosine (m6A) epitranscriptome reveals functional partitioning of localized transcripts

(2018) Daria Merkurjev et al.   NATURE NEUROSCIENCE

Different Neuronal Activity Patterns Induce Different Gene Expression Programs

(2018) Kelsey M. Tyssowski et al.   NEURON

Alternative 3′ UTRs Modify the Localization, Regulatory Potential, Stability, and Plasticity of mRNAs in Neuronal Compartments

(2018) Georgi Tushev et al.   NEURON

Mettl14 Is Essential for Epitranscriptomic Regulation of Striatal Function and Learning

(2018) Jessica L. Koranda et al.   NEURON

Epitranscriptomic m 6 A Regulation of Axon Regeneration in the Adult Mammalian Nervous System

(2018) Yi-Lan Weng et al.   NEURON

eIF4A alleviates the translational repression mediated by classical secondary structures more than by G-quadruplexes

(2018) Joseph A Waldron et al.   NUCLEIC ACIDS RESEARCH

The CaMKII/NMDA receptor complex controls hippocampal synaptic transmission by kinase-dependent and independent mechanisms

(2018) Salvatore Incontro et al.   Nature Communications

A potentially abundant junctional RNA motif stabilized by m6A and Mg2+

(2018) Bei Liu et al.   Nature Communications

CellProfiler 3.0: Next-generation image processing for biology

(2018) Claire McQuin et al.   PLOS BIOLOGY

The Role of m6A/m-RNA Methylation in Stress Response Regulation

(2018) Mareen Engel et al.   NEURON

METTL3-mediated N6-methyladenosine mRNA modification enhances long-term memory consolidation

(2018) Zeyu Zhang et al.   CELL RESEARCH

m6A facilitates hippocampus-dependent learning and memory through YTHDF1

(2018) Hailing Shi et al.   NATURE

UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy

(2017) Tom Smith et al.   GENOME RESEARCH

An improved MS2 system for accurate reporting of the mRNA life cycle

(2017) Evelina Tutucci et al.   NATURE METHODS

Engineered AAVs for efficient noninvasive gene delivery to the central and peripheral nervous systems

(2017) Ken Y Chan et al.   NATURE NEUROSCIENCE

N6-methyladenosine (m6A) recruits and repels proteins to regulate mRNA homeostasis

(2017) Raghu R Edupuganti et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Role of The RNA Demethylase FTO (Fat Mass and Obesity-Associated) and mRNA Methylation in Hippocampal Memory Formation

(2017) Brandon J Walters et al.   NEUROPSYCHOPHARMACOLOGY

Dynamic m6A modification regulates local translation of mRNA in axons

(2017) Jun Yu et al.   NUCLEIC ACIDS RESEARCH

Imaging mRNA and protein interactions within neurons

(2017) Carolina Eliscovich et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mechanistic implications of enhanced editing by a HyperTRIBE RNA-binding protein

(2017) Weijin Xu et al.   RNA

The non-coding RNA BC1 regulates experience-dependent structural plasticity and learning

(2017) Victor Briz et al.   Nature Communications

RNA localization is a key determinant of neurite-enriched proteome

(2017) Alessandra Zappulo et al.   Nature Communications

N6-methyladenosine (m6A) recruits and repels proteins to regulate mRNA homeostasis

(2017) Raghu R Edupuganti et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

YTHDC1 mediates nuclear export of N6-methyladenosine methylated mRNAs

(2017) Ian A Roundtree et al.   eLife

Dynamic mRNA Transport and Local Translation in Radial Glial Progenitors of the Developing Brain

(2016) Louis-Jan Pilaz et al.   CURRENT 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

Distal Alternative Last Exons Localize mRNAs to Neural Projections

(2016) J. Matthew Taliaferro et al.   MOLECULAR CELL

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

(2016) Shuibin Lin et al.   MOLECULAR CELL

Data-driven hypothesis weighting increases detection power in genome-scale multiple testing

(2016) Nikolaos Ignatiadis et al.   NATURE METHODS

smiFISH and FISH-quant – a flexible single RNA detection approach with super-resolution capability

(2016) Nikolay Tsanov et al.   NUCLEIC ACIDS RESEARCH

Genome-wide assessment of differential translations with ribosome profiling data

(2016) Zhengtao Xiao et al.   Nature Communications

A conserved abundant cytoplasmic long noncoding RNA modulates repression by Pumilio proteins in human cells

(2016) Ailone Tichon et al.   Nature Communications

5′ UTR m6A Promotes Cap-Independent Translation

(2015) Kate D. Meyer et al.   CELL

N6-methyladenosine Modulates Messenger RNA Translation Efficiency

(2015) Xiao Wang et al.   CELL

Synonymous modification results in high-fidelity gene expression of repetitive protein and nucleotide sequences

(2015) Bin Wu et al.   GENES & DEVELOPMENT

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

(2015) Shengdong Ke et al.   GENES & DEVELOPMENT

Structural Basis for the Discriminative Recognition ofN6-Methyladenosine RNA by the Human YT521-B Homology Domain Family of Proteins

(2015) Chao Xu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Single  -Actin mRNA Detection in Neurons Reveals a Mechanism for Regulating Its Translatability

(2014) A. R. Buxbaum et al.   SCIENCE

Visualization of Dynamics of Single Endogenous mRNA Labeled in Live Mouse

(2014) H. Y. Park et al.   SCIENCE

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Widespread and extensive lengthening of 3' UTRs in the mammalian brain

(2013) P. Miura et al.   GENOME RESEARCH

N6-methyladenosine-dependent regulation of messenger RNA stability

(2013) Xiao Wang et al.   NATURE

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

(2013) Martin E Hess et al.   NATURE NEUROSCIENCE

The Central Dogma Decentralized: New Perspectives on RNA Function and Local Translation in Neurons

(2013) Christine E. Holt et al.   NEURON

Probing N6-methyladenosine RNA modification status at single nucleotide resolution in mRNA and long noncoding RNA

(2013) N. Liu et al.   RNA

Interactome of Two Diverse RNA Granules Links mRNA Localization to Translational Repression in Neurons

(2013) Renate Fritzsche et al.   Cell Reports

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

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

(2012) Kate D. Meyer et al.   CELL

FMRP targets distinct mRNA sequence elements to regulate protein expression

(2012) Manuel Ascano et al.   NATURE

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

The Local Transcriptome in the Synaptic Neuropil Revealed by Deep Sequencing and High-Resolution Imaging

(2012) Iván J. Cajigas et al.   NEURON

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

(2012) Guangchuang Yu et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

A Role for Dendritic Translation of CaMKIIα mRNA in Olfactory Plasticity

(2012) Marie Néant-Fery et al.   PLoS One

Identification of a cis-acting element that localizes mRNA to synapses

(2012) E. J. Meer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Independent localization of MAP2, CaMKIIα and β-actin RNAs in low copy numbers

(2011) Martin Mikl et al.   EMBO REPORTS

Npas4 Regulates a Transcriptional Program in CA3 Required for Contextual Memory Formation

(2011) K. Ramamoorthi et al.   SCIENCE

The ARiBo tag: a reliable tool for affinity purification of RNAs under native conditions

(2010) Geneviève Di Tomasso et al.   NUCLEIC ACIDS RESEARCH

Mammalian Pumilio 2 regulates dendrite morphogenesis and synaptic function

(2010) J. P. Vessey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

A recombinant polypeptide extends the in vivo half-life of peptides and proteins in a tunable manner

(2009) Volker Schellenberger et al.   NATURE BIOTECHNOLOGY

To localize or not to localize: mRNA fate is in 3′UTR ends

(2009) Catia Andreassi et al.   TRENDS IN CELL BIOLOGY

A Direct Role for FMRP in Activity-Dependent Dendritic mRNA Transport Links Filopodial-Spine Morphogenesis to Fragile X Syndrome

(2008) Jason B. Dictenberg et al.   DEVELOPMENTAL CELL

Smaller Dendritic Spines, Weaker Synaptic Transmission, but Enhanced Spatial Learning in Mice Lacking Shank1

(2008) A. Y. Hung et al.   JOURNAL OF NEUROSCIENCE

Multiplexed Dendritic Targeting of α Calcium Calmodulin-dependent Protein Kinase II, Neurogranin, and Activity-regulated Cytoskeleton-associated Protein RNAs by the A2 Pathway

(2008) Yuanzheng Gao et al.   MOLECULAR BIOLOGY OF THE CELL