Current and future perspectives of non-coding RNAs in brain function and neuropsychiatric disease

Alcohol use disorder causes global changes in splicing in the human brain

(2021) Derek Van Booven et al.   Translational Psychiatry

A novel pathway regulates social hierarchy via lncRNA AtLAS and postsynaptic synapsin IIb

(2020) Mei Ma et al.   CELL RESEARCH

Single cell transcriptome profiling of the human alcohol-dependent brain

(2020) Eric Brenner et al.   HUMAN MOLECULAR GENETICS

N6-methyladenosine of chromosome-associated regulatory RNA regulates chromatin state and transcription

(2020) Jun Liu et al.   SCIENCE

Schizophrenia-related microdeletion causes defective ciliary motility and brain ventricle enlargement via microRNA-dependent mechanisms in mice

(2020) Tae-Yeon Eom et al.   Nature Communications

Schizophrenia-associated MicroRNA–Gene Interactions in the Dorsolateral Prefrontal Cortex

(2020) Danielle M. Santarelli et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Role of long non-coding RNA Gas5 in cocaine action

(2020) Haiyang Xu et al.   BIOLOGICAL PSYCHIATRY

Altered serum microRNA expression profile in subjects with heroin and methamphetamine use disorder

(2020) Wan-Jian Gu et al.   BIOMEDICINE & PHARMACOTHERAPY

CRISPR disruption and UK Biobank analysis of a highly conserved polymorphic enhancer suggests a role in male anxiety and ethanol intake

(2020) Andrew R. McEwan et al.   MOLECULAR PSYCHIATRY

RIC-seq for global in situ profiling of RNA–RNA spatial interactions

(2020) Zhaokui Cai et al.   NATURE

A computational tool (H-MAGMA) for improved prediction of brain-disorder risk genes by incorporating brain chromatin interaction profiles

(2020) Nancy Y. A. Sey et al.   NATURE NEUROSCIENCE

Circulating microRNA 134 sheds light on the diagnosis of major depressive disorder

(2020) Han-ping Zhang et al.   Translational Psychiatry

Long non-coding RNA Neat1 regulates adaptive behavioural response to stress in mice

(2020) Michail S. Kukharsky et al.   Translational Psychiatry

Transcriptome Analysis of Alcohol Drinking in Non-Dependent and Dependent Mice Following Repeated Cycles of Forced Swim Stress Exposure

(2020) Sean P. Farris et al.   Brain Sciences

Transcriptomic Insight Into the Polygenic Mechanisms Underlying Psychiatric Disorders

(2020) Leanna M. Hernandez et al.   BIOLOGICAL PSYCHIATRY

Global reference mapping of human transcription factor footprints

(2020) Jeff Vierstra et al.   NATURE

Spatiotemporal DNA methylome dynamics of the developing mouse fetus

(2020) Yupeng He et al.   NATURE

Epigenetic regulation of enhancer RNAs in neuropsychiatric disease and addiction

(2020) Evan J Kyzar et al.   Epigenomics

Cocaine-regulated microRNA miR-124 controls poly (ADP-ribose) polymerase-1 expression in neuronal cells

(2020) Sabyasachi Dash et al.   Scientific Reports

Parsing the Functional Impact of Non-Coding Genetic Variants in the Brain Epigenome

(2020) Samuel K. Powell et al.   BIOLOGICAL PSYCHIATRY

Enhancer RNAs predict enhancer–gene regulatory links and are critical for enhancer function in neuronal systems

(2020) Nancy V N Carullo et al.   NUCLEIC ACIDS RESEARCH

Circular RNAs: The Brain Transcriptome Comes Full Circle

(2020) Akira Gokool et al.   TRENDS IN NEUROSCIENCES

Integrative genomics identifies a convergent molecular subtype that links epigenomic with transcriptomic differences in autism

(2020) Gokul Ramaswami et al.   Nature Communications

Deficiency of NEAT1 prevented MPP+-induced inflammatory response, oxidative stress and apoptosis in dopaminergic SK-N-SH neuroblastoma cells via miR-1277-5p/ARHGAP26 axis

(2020) Shufang Zhou et al.   BRAIN RESEARCH

Massively parallel techniques for cataloguing the regulome of the human brain

(2020) Kayla G. Townsley et al.   NATURE NEUROSCIENCE

Population-scale study of eRNA transcription reveals bipartite functional enhancer architecture

(2020) Katla Kristjánsdóttir et al.   Nature Communications

Adolescent alcohol exposure epigenetically suppresses amygdala Arc enhancer RNA expression to confer adult anxiety susceptibility

(2019) Evan J. Kyzar et al.   BIOLOGICAL PSYCHIATRY

Genomic Enhancers in Brain Health and Disease

(2019) Nancy V.N. Carullo et al.   Genes

The lncRNA BDNF-AS is an epigenetic regulator in the human amygdala in early onset alcohol use disorders

(2019) John Peyton Bohnsack et al.   Translational Psychiatry

Enhancer Histone Acetylation Modulates Transcriptional Bursting Dynamics of Neuronal Activity-Inducible Genes

(2019) Liang-Fu Chen et al.   Cell Reports

A Bayesian framework that integrates multi-omics data and gene networks predicts risk genes from schizophrenia GWAS data

(2019) Quan Wang et al.   NATURE NEUROSCIENCE

Dysregulation of the histone demethylase KDM6B in alcohol dependence is associated with epigenetic regulation of inflammatory signaling pathways

(2019) Andrea L. Johnstone et al.   ADDICTION BIOLOGY

Epigenetic Mechanisms of Opioid Addiction

(2019) Caleb J. Browne et al.   BIOLOGICAL PSYCHIATRY

Nuclear transcriptional changes in hypothalamus of Pomc enhancer knockout mice after excessive alcohol drinking

(2019) Yan Zhou et al.   GENES BRAIN AND BEHAVIOR

Peripheral blood microRNA levels in females with cocaine use disorder

(2019) Thiago Wendt Viola et al.   JOURNAL OF PSYCHIATRIC RESEARCH

Long noncoding RNA NEAT1 mediates neuronal histone methylation and age-related memory impairment

(2019) Anderson A. Butler et al.   Science Signaling

Glial gene networks associated with alcohol dependence

(2019) Emma K. Erickson et al.   Scientific Reports

Neurobiological functions of transcriptional enhancers

(2019) Alex S. Nord et al.   NATURE NEUROSCIENCE

Determinants of enhancer and promoter activities of regulatory elements

(2019) Robin Andersson et al.   NATURE REVIEWS GENETICS

Brain cell type–specific enhancer–promoter interactome maps and disease-risk association

(2019) Alexi Nott et al.   SCIENCE

Silencing synaptic MicroRNA-411 reduces voluntary alcohol consumption in mice

(2018) Dana Most et al.   ADDICTION BIOLOGY

Noncoding RNAs: Stress, Glucocorticoids, and Posttraumatic Stress Disorder

(2018) Nikolaos P. Daskalakis et al.   BIOLOGICAL PSYCHIATRY

Functional Classification and Experimental Dissection of Long Noncoding RNAs

(2018) Florian Kopp et al.   CELL

Functional Domains of NEAT1 Architectural lncRNA Induce Paraspeckle Assembly through Phase Separation

(2018) Tomohiro Yamazaki et al.   MOLECULAR CELL

Differential activity of transcribed enhancers in the prefrontal cortex of 537 cases with schizophrenia and controls

(2018) Mads E. Hauberg et al.   MOLECULAR PSYCHIATRY

Comprehensive comparative analysis of 5′-end RNA-sequencing methods

(2018) Xian Adiconis et al.   NATURE METHODS

CRISPR interference-based specific and efficient gene inactivation in the brain

(2018) Yi Zheng et al.   NATURE NEUROSCIENCE

Different Neuronal Activity Patterns Induce Different Gene Expression Programs

(2018) Kelsey M. Tyssowski et al.   NEURON

Coactivator condensation at super-enhancers links phase separation and gene control

(2018) Benjamin R. Sabari et al.   SCIENCE

Long Non-coding RNAs, Novel Culprits, or Bodyguards in Neurodegenerative Diseases

(2018) Ding-Qi Wang et al.   Molecular Therapy-Nucleic Acids

Molecular Diversity and Specializations among the Cells of the Adult Mouse Brain

(2018) Arpiar Saunders et al.   CELL

Enhancers active in dopamine neurons are a primary link between genetic variation and neuropsychiatric disease

(2018) Xianjun Dong et al.   NATURE NEUROSCIENCE

Predicting polygenic risk of psychiatric disorders

(2018) Alicia R. Martin et al.   BIOLOGICAL PSYCHIATRY

Long noncoding RNA GM12371 acts as a transcriptional regulator of synapse function

(2018) Bindu L. Raveendra et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Neuron-specific signatures in the chromosomal connectome associated with schizophrenia risk

(2018) Prashanth Rajarajan et al.   SCIENCE

The DGCR5 long noncoding RNA may regulate expression of several schizophrenia-related genes

(2018) Qingtuan Meng et al.   Science Translational Medicine

MicroRNAs regulate synaptic plasticity underlying drug addiction

(2017) A. C. W. Smith et al.   GENES BRAIN AND BEHAVIOR

Open chromatin profiling of human postmortem brain infers functional roles for non-coding schizophrenia loci

(2017) John F Fullard et al.   HUMAN MOLECULAR GENETICS

Microglial-derived miRNA let-7 and HMGB1 contribute to ethanol-induced neurotoxicity via TLR7

(2017) Leon G. Coleman et al.   Journal of Neuroinflammation

In silico identification and in vivo validation of miR-495 as a novel regulator of motivation for cocaine that targets multiple addiction-related networks in the nucleus accumbens

(2017) R M Bastle et al.   MOLECULAR PSYCHIATRY

Genome-scale activation screen identifies a lncRNA locus regulating a gene neighbourhood

(2017) Julia Joung et al.   NATURE

Neuronal activity modifies the chromatin accessibility landscape in the adult brain

(2017) Yijing Su et al.   NATURE NEUROSCIENCE

NONCODEV5: a comprehensive annotation database for long non-coding RNAs

(2017) ShuangSang Fang et al.   NUCLEIC ACIDS RESEARCH

Loss of a mammalian circular RNA locus causes miRNA deregulation and affects brain function

(2017) Monika Piwecka et al.   SCIENCE

The Activity-Induced Long Non-Coding RNA Meg3 Modulates AMPA Receptor Surface Expression in Primary Cortical Neurons

(2017) Men C. Tan et al.   Frontiers in Cellular Neuroscience

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

(2017) Victor Briz et al.   Nature Communications

MiR-218 targets MeCP2 and inhibits heroin seeking behavior

(2017) Biao Yan et al.   Scientific Reports

Inhibition of the Schizophrenia-Associated MicroRNA miR-137 Disrupts Nrg1α Neurodevelopmental Signal Transduction

(2017) Kristen Therese Thomas et al.   Cell Reports

Diagnostic value of blood-derived microRNAs for schizophrenia: results of a meta-analysis and validation

(2017) Sha Liu et al.   Scientific Reports

Cross-species molecular dissection across alcohol behavioral domains

(2017) Sean P. Farris et al.   ALCOHOL

The Potential Role of Amygdaloid MicroRNA-494 in Alcohol-Induced Anxiolysis

(2016) Tara L. Teppen et al.   BIOLOGICAL PSYCHIATRY

Long noncoding RNA BDNF-AS regulates ketamine-induced neurotoxicity in neural stem cell derived neurons

(2016) Xiaozhu Zheng et al.   BIOMEDICINE & PHARMACOTHERAPY

Cocaine-mediated downregulation of microglial miR-124 expression involves promoter DNA methylation

(2016) Ming-Lei Guo et al.   Epigenetics

Reprogramming of mPFC transcriptome and function in alcohol dependence

(2016) M. Heilig et al.   GENES BRAIN AND BEHAVIOR

MiR-137: an important player in neural development and neoplastic transformation

(2016) E Mahmoudi et al.   MOLECULAR PSYCHIATRY

Dysregulation of miRNA-9 in a Subset of Schizophrenia Patient-Derived Neural Progenitor Cells

(2016) Aaron Topol et al.   Cell Reports

Adolescent Alcohol Exposure: Burden of Epigenetic Reprogramming, Synaptic Remodeling, and Adult Psychopathology

(2016) Evan J. Kyzar et al.   Frontiers in Neuroscience

Detection of Circulating miRNA Levels in Schizophrenia

(2015) Hui Wei et al.   AMERICAN JOURNAL OF PSYCHIATRY

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Identification of long noncoding RNAs dysregulated in the midbrain of human cocaine abusers

(2015) Michael J. Bannon et al.   JOURNAL OF NEUROCHEMISTRY

The schizophrenia risk gene product miR-137 alters presynaptic plasticity

(2015) Sandra Siegert et al.   NATURE NEUROSCIENCE

Coexpression networks identify brain region–specific enhancer RNAs in the human brain

(2015) Pu Yao et al.   NATURE NEUROSCIENCE

Stimulus-specific combinatorial functionality of neuronal c-fos enhancers

(2015) Jae-Yeol Joo et al.   NATURE NEUROSCIENCE

microRNA-206 in Rat Medial Prefrontal Cortex Regulates BDNF Expression and Alcohol Drinking

(2014) J. D. Tapocik et al.   JOURNAL OF NEUROSCIENCE

Enhancer RNA Facilitates NELF Release from Immediate Early Genes

(2014) Katie Schaukowitch et al.   MOLECULAR CELL

Transcriptome organization for chronic alcohol abuse in human brain

(2014) S P Farris et al.   MOLECULAR PSYCHIATRY

Integrating the roles of long and small non-coding RNA in brain function and disease

(2014) G Barry   MOLECULAR PSYCHIATRY

An atlas of active enhancers across human cell types and tissues

(2014) Robin Andersson et al.   NATURE

Biological insights from 108 schizophrenia-associated genetic loci

(2014)   NATURE

Derepression of a Neuronal Inhibitor due to miRNA Dysregulation in a Schizophrenia-Related Microdeletion

(2013) Bin Xu et al.   CELL

The long non-coding RNA Gomafu is acutely regulated in response to neuronal activation and involved in schizophrenia-associated alternative splicing

(2013) G Barry et al.   MOLECULAR PSYCHIATRY

Functional roles of enhancer RNAs for oestrogen-dependent transcriptional activation

(2013) Wenbo Li et al.   NATURE

Predicting enhancer transcription and activity from chromatin modifications

(2013) Yun Zhu et al.   NUCLEIC ACIDS RESEARCH

Global Epigenomic Reconfiguration During Mammalian Brain Development

(2013) R. Lister et al.   SCIENCE

MALAT-1, a non protein-coding RNA is upregulated in the cerebellum, hippocampus and brain stem of human alcoholics

(2012) Rosemarie Kryger et al.   ALCOHOL

MicroRNA 339 down-regulates μ-opioid receptor at the post-transcriptional level in response to opioid treatment

(2012) Qifang Wu et al.   FASEB JOURNAL

Transcriptome analysis of long non-coding RNAs of the nucleus accumbens in cocaine-conditioned mice

(2012) Qian Bu et al.   JOURNAL OF NEUROCHEMISTRY

Inhibition of natural antisense transcripts in vivo results in gene-specific transcriptional upregulation

(2012) Farzaneh Modarresi et al.   NATURE BIOTECHNOLOGY

Emerging roles of non-coding RNAs in brain evolution, development, plasticity and disease

(2012) Irfan A. Qureshi et al.   NATURE REVIEWS NEUROSCIENCE

Genome-wide analysis reveals distinct patterns of epigenetic features in long non-coding RNA loci

(2012) Satish Sati et al.   NUCLEIC ACIDS RESEARCH

Systematic Localization of Common Disease-Associated Variation in Regulatory DNA

(2012) M. T. Maurano et al.   SCIENCE

Up-Regulation of MicroRNAs in Brain of Human Alcoholics

(2011) Joanne M. Lewohl et al.   ALCOHOLISM-CLINICAL AND EXPERIMENTAL RESEARCH

A Long Noncoding RNA Controls Muscle Differentiation by Functioning as a Competing Endogenous RNA

(2011) Marcella Cesana et al.   CELL

Imprinted DLK1-DIO3 region of 14q32 defines a schizophrenia-associated miRNA signature in peripheral blood mononuclear cells

(2011) E Gardiner et al.   MOLECULAR PSYCHIATRY

A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression

(2011) Kevin C. Wang et al.   NATURE

Upregulation of Dicer and MicroRNA Expression in the Dorsolateral Prefrontal Cortex Brodmann Area 46 in Schizophrenia

(2010) Danielle M. Santarelli et al.   BIOLOGICAL PSYCHIATRY

A long nuclear-retained non-coding RNA regulates synaptogenesis by modulating gene expression

(2010) Delphine Bernard et al.   EMBO JOURNAL

Striatal microRNA controls cocaine intake through CREB signalling

(2010) Jonathan A. Hollander et al.   NATURE

Widespread transcription at neuronal activity-regulated enhancers

(2010) Tae-Kyung Kim et al.   NATURE

Mammalian microRNAs predominantly act to decrease target mRNA levels

(2010) Huili Guo et al.   NATURE

MeCP2 controls BDNF expression and cocaine intake through homeostatic interactions with microRNA-212

(2010) Heh-In Im et al.   NATURE NEUROSCIENCE

Histone H3K27ac separates active from poised enhancers and predicts developmental state

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

Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes

(2010) M.-C. Tsai et al.   SCIENCE

Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotes

(2010) Rebecca A Chodroff et al.   GENOME BIOLOGY

MicroRNAs: Target Recognition and Regulatory Functions

(2009) David P. Bartel   CELL

An Architectural Role for a Nuclear Noncoding RNA: NEAT1 RNA Is Essential for the Structure of Paraspeckles

(2009) Christine M. Clemson et al.   MOLECULAR CELL

Balanced gene regulation by an embryonic brain ncRNA is critical for adult hippocampal GABA circuitry

(2009) Allison M Bond et al.   NATURE NEUROSCIENCE

MicroRNA-219 modulates NMDA receptor-mediated neurobehavioral dysfunction

(2009) J. Kocerha et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic and Transcriptional Co-Localization of Protein-Coding and Long Non-Coding RNA Pairs in the Developing Brain

(2009) Jasmina Ponjavic et al.   PLoS Genetics

Altered brain microRNA biogenesis contributes to phenotypic deficits in a 22q11-deletion mouse model

(2008) Kimberly L Stark et al.   NATURE GENETICS

Posttranscriptional Regulation of BK Channel Splice Variant Stability by miR-9 Underlies Neuroadaptation to Alcohol

(2008) Andrzej Z. Pietrzykowski et al.   NEURON