Post-transcriptional Processing of mRNA in Neurons: The Vestiges of the RNA World Drive Transcriptome Diversity

The Neuronal Gene Arc Encodes a Repurposed Retrotransposon Gag Protein that Mediates Intercellular RNA Transfer

(2018) Elissa D. Pastuzyn et al.   CELL

Retrovirus-like Gag Protein Arc1 Binds RNA and Traffics across Synaptic Boutons

(2018) James Ashley et al.   CELL

The Human Transcription Factors

(2018) Samuel A. Lambert et al.   CELL

Functional Classification and Experimental Dissection of Long Noncoding RNAs

(2018) Florian Kopp et al.   CELL

Metazoan MicroRNAs

(2018) David P. Bartel   CELL

Axonal mRNA transport and translation at a glance

(2018) Pabitra K. Sahoo et al.   JOURNAL OF CELL SCIENCE

TP53INP2 regulates adiposity by activating β-catenin through autophagy-dependent sequestration of GSK3β

(2018) Montserrat Romero et al.   NATURE CELL BIOLOGY

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

(2018) Georgi Tushev et al.   NEURON

Locally translated mTOR controls axonal local translation in nerve injury

(2018) Marco Terenzio et al.   SCIENCE

Delayed Degradation and Impaired Dendritic Delivery of Intron-Lacking EGFP-Arc/Arg3.1 mRNA in EGFP-Arc Transgenic Mice

(2018) Oswald Steward et al.   Frontiers in Molecular Neuroscience

Arc 3′ UTR Splicing Leads to Dual and Antagonistic Effects in Fine-Tuning Arc Expression Upon BDNF Signaling

(2018) Chiara Paolantoni et al.   Frontiers in Molecular Neuroscience

A transgenic mouse for imaging activity-dependent dynamics of endogenous Arc mRNA in live neurons

(2018) Sulagna Das et al.   Science Advances

The punctilious RNA polymerase II core promoter

(2017) Long Vo ngoc et al.   GENES & DEVELOPMENT

Intron retention as a component of regulated gene expression programs

(2017) Aishwarya G. Jacob et al.   HUMAN GENETICS

Light-Up RNA Aptamers and Their Cognate Fluorogens: From Their Development to Their Applications

(2017) Farah Bouhedda et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Translation of CircRNAs

(2017) Nagarjuna Reddy Pamudurti et al.   MOLECULAR CELL

Circ-ZNF609 Is a Circular RNA that Can Be Translated and Functions in Myogenesis

(2017) Ivano Legnini et al.   MOLECULAR CELL

The Dynamics of mRNA Turnover Revealed by Single-Molecule Imaging in Single Cells

(2017) Ivana Horvathova et al.   MOLECULAR CELL

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

(2017) Evelina Tutucci et al.   NATURE METHODS

Regulatory feedback from nascent RNA to chromatin and transcription

(2017) Lenka Skalska et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Non-nuclear Pool of Splicing Factor SFPQ Regulates Axonal Transcripts Required for Normal Motor Development

(2017) Swapna Thomas-Jinu et al.   NEURON

Getting mRNA-Containing Ribonucleoprotein Granules Out of a Nuclear Back Door

(2017) Anup Parchure et al.   NEURON

Alternative start and termination sites of transcription drive most transcript isoform differences across human tissues

(2017) Alejandro Reyes et al.   NUCLEIC ACIDS RESEARCH

Enzymatic production of single-molecule FISH and RNA capture probes

(2017) Imre Gaspar et al.   RNA

Post-transcriptional 3´-UTR cleavage of mRNA transcripts generates thousands of stable uncapped autonomous RNA fragments

(2017) Yuval Malka et al.   Nature Communications

Activity-Dependent Regulation of Alternative Cleavage and Polyadenylation During Hippocampal Long-Term Potentiation

(2017) Mariana M. Fontes et al.   Scientific Reports

Recruitment of Staufen2 Enhances Dendritic Localization of an Intron-Containing CaMKIIα mRNA

(2017) Raúl Ortiz et al.   Cell Reports

Optimized Method for Robust Transcriptome Profiling of Minute Tissues Using Laser Capture Microdissection and Low-Input RNA-Seq

(2017) Shannon Farris et al.   Frontiers in Molecular Neuroscience

Long 3'UTR of Nurr1 mRNAs is targeted by miRNAs in mesencephalic dopamine neurons

(2017) Luis Alberto Pereira et al.   PLoS One

The Discovery of Rolling Circle Amplification and Rolling Circle Transcription

(2016) Michael G. Mohsen et al.   ACCOUNTS OF CHEMICAL RESEARCH

Dynamic Axonal Translation in Developing and Mature Visual Circuits

(2016) Toshiaki Shigeoka et al.   CELL

CncRNAs: RNAs with both coding and non-coding roles in development

(2016) Karuna Sampath et al.   DEVELOPMENT

IMP2 axonal localization, RNA interactome, and function in the development of axon trajectories

(2016) Nicolas Preitner et al.   DEVELOPMENT

Defective control of pre–messenger RNA splicing in human disease

(2016) Benoit Chabot et al.   JOURNAL OF CELL BIOLOGY

Distal Alternative Last Exons Localize mRNAs to Neural Projections

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

A 3′ UTR-Derived Small RNA Provides the Regulatory Noncoding Arm of the Inner Membrane Stress Response

(2016) Yanjie Chao et al.   MOLECULAR CELL

Pervasive isoform‐specific translational regulation via alternative transcription start sites in mammals

(2016) Xi Wang et al.   Molecular Systems Biology

Incredible RNA: Dual Functions of Coding and Noncoding

(2016)   MOLECULES AND CELLS

The dynamic N1-methyladenosine methylome in eukaryotic messenger RNA

(2016) Dan Dominissini et al.   NATURE

The RNA-binding protein SFPQ orchestrates an RNA regulon to promote axon viability

(2016) Katharina E Cosker et al.   NATURE NEUROSCIENCE

Coming of age: ten years of next-generation sequencing technologies

(2016) Sara Goodwin et al.   NATURE REVIEWS GENETICS

Alternative polyadenylation of mRNA precursors

(2016) Bin Tian et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The biogenesis and emerging roles of circular RNAs

(2016) Ling-Ling Chen   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Targeted Intron Retention and Excision for Rapid Gene Regulation in Response to Neuronal Activity

(2016) Oriane Mauger et al.   NEURON

Stem–loop RNA labeling can affect nuclear and cytoplasmic mRNA processing

(2016) Stephanie Heinrich et al.   RNA

Uridylation Earmarks mRNAs for Degradation… and More

(2016) Hélène Scheer et al.   TRENDS IN GENETICS

MECP2 Is Post-transcriptionally Regulated during Human Neurodevelopment by Combinatorial Action of RNA-Binding Proteins and miRNAs

(2016) Deivid C. Rodrigues et al.   Cell Reports

Cellular Taxonomy of the Mouse Striatum as Revealed by Single-Cell RNA-Seq

(2016) Ozgun Gokce et al.   Cell Reports

The human BDNF gene: peripheral gene expression and protein levels as biomarkers for psychiatric disorders

(2016) A Cattaneo et al.   Translational Psychiatry

Circular RNAs: Novel Regulators of Neuronal Development

(2016) Daniëlle van Rossum et al.   Frontiers in Molecular Neuroscience

The RNA World as a Model System to Study the Origin of Life

(2015) Abe Pressman et al.   CURRENT BIOLOGY

Efficient use of a translation start codon in BDNF exon I

(2015) Indrek Koppel et al.   JOURNAL OF NEUROCHEMISTRY

ELAV Links Paused Pol II to Alternative Polyadenylation in the Drosophila Nervous System

(2015) Katarzyna Oktaba et al.   MOLECULAR CELL

Circular RNAs in the Mammalian Brain Are Highly Abundant, Conserved, and Dynamically Expressed

(2015) Agnieszka Rybak-Wolf et al.   MOLECULAR CELL

A coding-independent function of an alternative Ube3a transcript during neuronal development

(2015) Jeremy Valluy et al.   NATURE NEUROSCIENCE

Neural circular RNAs are derived from synaptic genes and regulated by development and plasticity

(2015) Xintian You et al.   NATURE NEUROSCIENCE

Fluorescent in situ sequencing (FISSEQ) of RNA for gene expression profiling in intact cells and tissues

(2015) Je Hyuk Lee et al.   Nature Protocols

Widespread Differential Expression of Coding Region and 3′ UTR Sequences in Neurons and Other Tissues

(2015) Arif Kocabas et al.   NEURON

Mechanisms of Long Non-coding RNAs in Mammalian Nervous System Development, Plasticity, Disease, and Evolution

(2015) James A. Briggs et al.   NEURON

MS2 coat proteins bound to yeast mRNAs block 5' to 3' degradation and trap mRNA decay products: implications for the localization of mRNAs by MS2-MCP system

(2015) J. F. Garcia et al.   RNA

An RNA biosensor for imaging the first round of translation from single cells to living animals

(2015) J. M. Halstead et al.   SCIENCE

Metabolic Enzymes Enjoying New Partnerships as RNA-Binding Proteins

(2015) Alfredo Castello et al.   TRENDS IN ENDOCRINOLOGY AND METABOLISM

Dendritic targeting of short and long 3′ UTR BDNF mRNA is regulated by BDNF or NT-3 and distinct sets of RNA-binding proteins

(2015) Annalisa Vicario et al.   Frontiers in Molecular Neuroscience

Alternative polyadenylation in the nervous system: To what lengths will 3′ UTR extensions take us?

(2014) Pedro Miura et al.   BIOESSAYS

A Protein-Tagging System for Signal Amplification in Gene Expression and Fluorescence Imaging

(2014) Marvin E. Tanenbaum et al.   CELL

Genome-wide RNA Tomography in the Zebrafish Embryo

(2014) Jan Philipp Junker et al.   CELL

Autophagy-regulating TP53INP2 mediates muscle wasting and is repressed in diabetes

(2014) David Sala et al.   JOURNAL OF CLINICAL INVESTIGATION

circRNA Biogenesis Competes with Pre-mRNA Splicing

(2014) Reut Ashwal-Fluss et al.   MOLECULAR CELL

Detecting and characterizing circular RNAs

(2014) William R Jeck et al.   NATURE BIOTECHNOLOGY

Emerging evidence for functional peptides encoded by short open reading frames

(2014) Shea J. Andrews 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

CaMKII: Claiming Center Stage in Postsynaptic Function and Organization

(2014) Johannes W. Hell   NEURON

Visualization of Dynamics of Single Endogenous mRNA Labeled in Live Mouse

(2014) H. Y. Park et al.   SCIENCE

Absence of a simple code: how transcription factors read the genome

(2014) Matthew Slattery et al.   TRENDS IN BIOCHEMICAL SCIENCES

Regulation of Axon Guidance by Compartmentalized Nonsense-Mediated mRNA Decay

(2013) Dilek Colak et al.   CELL

Sox proteins: regulators of cell fate specification and differentiation

(2013) Y. Kamachi et al.   DEVELOPMENT

Human-specific regulation of MeCP2 levels in fetal brains by microRNA miR-483-5p

(2013) K. Han et al.   GENES & DEVELOPMENT

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

(2013) P. Miura et al.   GENOME RESEARCH

Axonal Localization of Neuritin/CPG15 mRNA in Neuronal Populations through Distinct 5' and 3' UTR Elements

(2013) T. T. Merianda et al.   JOURNAL OF NEUROSCIENCE

Natural RNA circles function as efficient microRNA sponges

(2013) Thomas B. Hansen et al.   NATURE

Circular RNAs are a large class of animal RNAs with regulatory potency

(2013) Sebastian Memczak et al.   NATURE

Visualizing SNVs to quantify allele-specific expression in single cells

(2013) Marshall J Levesque et al.   NATURE METHODS

Allele-specific detection of single mRNA molecules in situ

(2013) Clinton H Hansen et al.   NATURE METHODS

BDNF-based synaptic repair as a disease-modifying strategy for neurodegenerative diseases

(2013) Bai Lu et al.   NATURE REVIEWS NEUROSCIENCE

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

(2013) Christine E. Holt et al.   NEURON

Alternative polyadenylation and differential expression of Shank mRNAs in the synaptic neuropil

(2013) I. Epstein et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Subcellular RNA Sequencing Reveals Broad Presence of Cytoplasmic Intron-Sequence Retaining Transcripts in Mouse and Rat Neurons

(2013) Mugdha Khaladkar et al.   PLoS One

Deep Sequencing and High-Resolution Imaging Reveal Compartment-Specific Localization of Bdnf mRNA in Hippocampal Neurons

(2013) T. J. Will et al.   Science Signaling

Staufen2 Regulates Neuronal Target RNAs

(2013) Jacki E. Heraud-Farlow et al.   Cell Reports

Nuclear Envelope Budding Enables Large Ribonucleoprotein Particle Export during Synaptic Wnt Signaling

(2012) Sean D. Speese et al.   CELL

U1 snRNP Determines mRNA Length and Regulates Isoform Expression

(2012) Michael G. Berg et al.   CELL

A quantitative atlas of polyadenylation in five mammals

(2012) Adnan Derti et al.   GENOME RESEARCH

Transcription factors: from enhancer binding to developmental control

(2012) François Spitz et al.   NATURE REVIEWS GENETICS

Subcellular Knockout of Importin β1 Perturbs Axonal Retrograde Signaling

(2012) Rotem Ben-Tov Perry et al.   NEURON

Circular RNAs Are the Predominant Transcript Isoform from Hundreds of Human Genes in Diverse Cell Types

(2012) Julia Salzman et al.   PLoS One

Transcriptome Tomography for Brain Analysis in the Web-Accessible Anatomical Space

(2012) Yuko Okamura-Oho et al.   PLoS One

Staufen2 functions in Staufen1-mediated mRNA decay by binding to itself and its paralog and promoting UPF1 helicase but not ATPase activity

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

The significant other: splicing by the minor spliceosome

(2012) Janne J. Turunen et al.   Wiley Interdisciplinary Reviews-RNA

Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar development

(2011) Sharmistha Pal et al.   GENOME RESEARCH

Cell-to-cell variability of alternative RNA splicing

(2011) Z. Waks et al.   Molecular Systems Biology

Cytoplasmic Intron Sequence-Retaining Transcripts Can Be Dendritically Targeted via ID Element Retrotransposons

(2011) Peter T. Buckley et al.   NEURON

Neural-specific elongation of 3' UTRs during Drosophila development

(2011) V. Hilgers et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Brain-derived neurotrophic factor and the development of structural neuronal connectivity

(2010) Susana Cohen-Cory et al.   Developmental Neurobiology

An NGF-responsive element targets myo-inositol monophosphatase-1 mRNA to sympathetic neuron axons

(2010) Catia Andreassi et al.   NATURE NEUROSCIENCE

Expression of distinct RNAs from 3′ untranslated regions

(2010) Tim R. Mercer et al.   NUCLEIC ACIDS RESEARCH

Nonsense-mediated mRNA decay in human cells: mechanistic insights, functions beyond quality control and the double-life of NMD factors

(2009) Pamela Nicholson et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

New Insights in the Biology of BDNF Synthesis and Release: Implications in CNS Function

(2009) M. E. Greenberg et al.   JOURNAL OF NEUROSCIENCE

Progressive lengthening of 3' untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development

(2009) Z. Ji et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

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

Distinct Role of Long 3′ UTR BDNF mRNA in Spine Morphology and Synaptic Plasticity in Hippocampal Neurons

(2008) Juan Ji An et al.   CELL

Imaging individual mRNA molecules using multiple singly labeled probes

(2008) Arjun Raj et al.   NATURE METHODS

Alternative Splicing of the Robo3 Axon Guidance Receptor Governs the Midline Switch from Attraction to Repulsion

(2008) Zhe Chen et al.   NEURON

To Cross or Not to Cross: Alternatively Spliced Forms of the Robo3 Receptor Regulate Discrete Steps in Axonal Midline Crossing

(2008) Douglas L. Black et al.   NEURON

Genome-Wide Analysis of MEF2 Transcriptional Program Reveals Synaptic Target Genes and Neuronal Activity-Dependent Polyadenylation Site Selection

(2008) Steven W. Flavell et al.   NEURON