Retroelement-derived RNA and its role in the brain

Author Correction: Regulation of transposable elements by DNA modifications

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L1 drives IFN in senescent cells and promotes age-associated inflammation

(2019) Marco De Cecco et al.   NATURE

LINE1 Derepression in Aged Wild-Type and SIRT6-Deficient Mice Drives Inflammation

(2019) Matthew Simon et al.   Cell Metabolism

Loss of Nuclear TDP-43 Is Associated with Decondensation of LINE Retrotransposons

(2019) Elaine Y. Liu et al.   Cell Reports

Somatic LINE-1 retrotransposition in cortical neurons and non-brain tissues of Rett patients and healthy individuals

(2019) Boxun Zhao et al.   PLoS Genetics

Activation of neuronal genes via LINE-1 elements upon global DNA demethylation in human neural progenitors

(2019) Marie E Jönsson et al.   Nature Communications

Diseases of the nERVous system: retrotransposon activity in neurodegenerative disease

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The neuropathological diagnosis of Alzheimer’s disease

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Identification and characterization of occult human-specific LINE-1 insertions using long-read sequencing technology

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LINE-1 ORF2p expression is nearly imperceptible in human cancers

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Human ADAR1 Prevents Endogenous RNA from Triggering Translational Shutdown

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Breaching Self-Tolerance to Alu Duplex RNA Underlies MDA5-Mediated Inflammation

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Dissecting the Causal Mechanism of X-Linked Dystonia-Parkinsonism by Integrating Genome and Transcriptome Assembly

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A LINE1-Nucleolin Partnership Regulates Early Development and ESC Identity

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Whole-genome sequencing reveals principles of brain retrotransposition in neurodevelopmental disorders

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Cytosolic sensing of immuno-stimulatory DNA, the enemy within

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Autoinflammatory phenotypes in Aicardi-Goutières syndrome with interferon upregulation and serological autoimmune features

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Tau Activates Transposable Elements in Alzheimer’s Disease

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Multiple sclerosis

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Analysis of LINE-1 Elements in DNA from Postmortem Brains of Individuals with Schizophrenia

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Aicardi–Goutières syndrome protein TREX1 suppresses L1 and maintains genome integrity through exonuclease-independent ORF1p depletion

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Disease onset in X-linked dystonia-parkinsonism correlates with expansion of a hexameric repeat within an SVA retrotransposon inTAF1

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Intersection of diverse neuronal genomes and neuropsychiatric disease: The Brain Somatic Mosaicism Network

(2017) Michael J. McConnell et al.   SCIENCE

The Genetics of Multiple Sclerosis: From 0 to 200 in 50 Years

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Amyotrophic lateral sclerosis

(2017) Orla Hardiman et al.   Nature Reviews Disease Primers

The association between human endogenous retroviruses and multiple sclerosis: A systematic review and meta-analysis

(2017) Elena Morandi et al.   PLoS One

Decoding ALS: from genes to mechanism

(2016) J. Paul Taylor et al.   NATURE

L1-associated genomic regions are deleted in somatic cells of the healthy human brain

(2016) Jennifer A Erwin et al.   NATURE NEUROSCIENCE

TDP-43 regulates endogenous retrovirus-K viral protein accumulation

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G-quadruplexes as novel cis-elements controlling transcription during embryonic development

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Retrotransposons as regulators of gene expression

(2016) R. A. Elbarbary et al.   SCIENCE

Regulatory evolution of innate immunity through co-option of endogenous retroviruses

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Resolving rates of mutation in the brain using single-neuron genomics

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Restricting retrotransposons: a review

(2016) John L. Goodier   Mobile DNA

Roles for retrotransposon insertions in human disease

(2016) Dustin C. Hancks et al.   Mobile DNA

Human endogenous retrovirus W in brain lesions: Rationale for targeted therapy in multiple sclerosis

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Ubiquitous L1 Mosaicism in Hippocampal Neurons

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Inhibiting DNA Methylation Causes an Interferon Response in Cancer via dsRNA Including Endogenous Retroviruses

(2015) Katherine B. Chiappinelli et al.   CELL

Primate-Specific ORF0 Contributes to Retrotransposon-Mediated Diversity

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Dynamic Transcription of Distinct Classes of Endogenous Retroviral Elements Marks Specific Populations of Early Human Embryonic Cells

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Transposable elements and G-quadruplexes

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Phenotypic Variation in Aicardi–Goutières Syndrome Explained by Cell-Specific IFN-Stimulated Gene Response and Cytokine Release

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Intrinsic retroviral reactivation in human preimplantation embryos and pluripotent cells

(2015) Edward J. Grow et al.   NATURE

Familial Amyotrophic Lateral Sclerosis

(2015) Kevin Boylan   NEUROLOGIC CLINICS

Cell Lineage Analysis in Human Brain Using Endogenous Retroelements

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MIR retrotransposon sequences provide insulators to the human genome

(2015) Jianrong Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA editing by ADAR1 prevents MDA5 sensing of endogenous dsRNA as nonself

(2015) B. J. Liddicoat et al.   SCIENCE

Human endogenous retrovirus-K contributes to motor neuron disease

(2015) Wenxue Li et al.   Science Translational Medicine

Discovery and Characterization of piRNAs in the Human Fetal Ovary

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Aicardi-Goutières Syndrome Is Caused by IFIH1 Mutations

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piRNA pathway targets active LINE1 elements to establish the repressive H3K9me3 mark in germ cells

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Widespread contribution of transposable elements to the innovation of gene regulatory networks

(2014) Vasavi Sundaram et al.   GENOME RESEARCH

Chronic Inflammation (Inflammaging) and Its Potential Contribution to Age-Associated Diseases

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An evolutionary arms race between KRAB zinc-finger genes ZNF91/93 and SVA/L1 retrotransposons

(2014) Frank M. J. Jacobs et al.   NATURE

Gain-of-function mutations in IFIH1 cause a spectrum of human disease phenotypes associated with upregulated type I interferon signaling

(2014) Gillian I Rice et al.   NATURE GENETICS

Tau promotes neurodegeneration through global chromatin relaxation

(2014) Bess Frost et al.   NATURE NEUROSCIENCE

Mobile DNA elements in the generation of diversity and complexity in the brain

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Increased L1 Retrotransposition in the Neuronal Genome in Schizophrenia

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Potential for genomic instability associated with retrotranspositionally-incompetent L1 loci

(2014) Kristine J. Kines et al.   NUCLEIC ACIDS RESEARCH

The RIDL hypothesis: transposable elements as functional domains of long noncoding RNAs

(2014) R. Johnson et al.   RNA

SIRT6 represses LINE1 retrotransposons by ribosylating KAP1 but this repression fails with stress and age

(2014) Michael Van Meter et al.   Nature Communications

Genomes of replicatively senescent cells undergo global epigenetic changes leading to gene silencing and activation of transposable elements

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Characterisation of the potential function of SVA retrotransposons to modulate gene expression patterns

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The Hallmarks of Aging

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De novo DNA methylation of endogenous retroviruses is shaped by KRAB-ZFPs/KAP1 and ESET

(2013) H. M. Rowe et al.   DEVELOPMENT

The Intertwining of Transposable Elements and Non-Coding RNAs

(2013) Michael Hadjiargyrou et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Comprehensive Analysis of Human Endogenous Retrovirus Group HERV-W Locus Transcription in Multiple Sclerosis Brain Lesions by High-Throughput Amplicon Sequencing

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Assessment of interferon-related biomarkers in Aicardi-Goutières syndrome associated with mutations in TREX1, RNASEH2A, RNASEH2B, RNASEH2C, SAMHD1, and ADAR: a case-control study

(2013) Gillian I Rice et al.   LANCET NEUROLOGY

DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape

(2013) Mingchao Xie et al.   NATURE GENETICS

mRNA–mRNA duplexes that autoelicit Staufen1-mediated mRNA decay

(2013) Chenguang Gong et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Alzheimer’s Disease: Analyzing the Missing Heritability

(2013) Perry G. Ridge et al.   PLoS One

Modulation of LINE-1 and Alu/SVA Retrotransposition by Aicardi-Goutières Syndrome-Related SAMHD1

(2013) Ke Zhao et al.   Cell Reports

Transposable Elements Are Major Contributors to the Origin, Diversification, and Regulation of Vertebrate Long Noncoding RNAs

(2013) Aurélie Kapusta et al.   PLoS Genetics

Human endogenous retrovirus type W envelope expression in blood and brain cells provides new insights into multiple sclerosis disease

(2012) Hervé Perron et al.   Multiple Sclerosis Journal

Mutations in ADAR1 cause Aicardi-Goutières syndrome associated with a type I interferon signature

(2012) Gillian I Rice et al.   NATURE GENETICS

Transposable elements reveal a stem cell-specific class of long noncoding RNAs

(2012) David Kelley et al.   GENOME BIOLOGY

Molecular characteristics of Human Endogenous Retrovirus type-W in schizophrenia and bipolar disorder

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Exonization of transposed elements: A challenge and opportunity for evolution

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DNA methylation in repetitive elements and Alzheimer disease

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Genome-wide dynamic changes of DNA methylation of repetitive elements in human embryonic stem cells and fetal fibroblasts

(2011) Jianzhong Su et al.   GENOMICS

Somatic retrotransposition alters the genetic landscape of the human brain

(2011) J. Kenneth Baillie et al.   NATURE

Mapping copy number variation by population-scale genome sequencing

(2011) Ryan E. Mills et al.   NATURE

Trimeric structure and flexibility of the L1ORF1 protein in human L1 retrotransposition

(2011) Elena Khazina et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Etiology of Multiple Sclerosis: Genetic Evidence for the Involvement of the Human Endogenous Retrovirus HERV-Fc1

(2011) Bjørn A. Nexø et al.   PLoS One

Widespread establishment and regulatory impact of Alu exons in human genes

(2011) S. Shen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ataxia telangiectasia mutated (ATM) modulates long interspersed element-1 (L1) retrotransposition in human neural stem cells

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Retrotransposition is associated with genome instability during chronological aging

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A Comprehensive Map of Mobile Element Insertion Polymorphisms in Humans

(2011) Chip Stewart et al.   PLoS Genetics

Identification of active loci of a human endogenous retrovirus in neurons of patients with amyotrophic lateral sclerosis

(2010) Renée Douville et al.   ANNALS OF NEUROLOGY

A LINE-1 component to human aging: Do LINE elements exact a longevity cost for evolutionary advantage?

(2010) Georges St. Laurent et al.   MECHANISMS OF AGEING AND DEVELOPMENT

Multiple sclerosis-associated retrovirus and progressive disability of multiple sclerosis

(2010) S. Sotgiu et al.   Multiple Sclerosis Journal

L1 retrotransposition in neurons is modulated by MeCP2

(2010) Alysson R. Muotri et al.   NATURE

Transposable elements have rewired the core regulatory network of human embryonic stem cells

(2010) Galih Kunarso et al.   NATURE GENETICS

Somatic expression of LINE-1 elements in human tissues

(2010) Victoria P. Belancio et al.   NUCLEIC ACIDS RESEARCH

Human SIRT6 Promotes DNA End Resection Through CtIP Deacetylation

(2010) Abderrahmane Kaidi et al.   SCIENCE

SVA retrotransposons: Evolution and genetic instability

(2010) Dustin C. Hancks et al.   SEMINARS IN CANCER BIOLOGY

Characterization of LINE-1 Ribonucleoprotein Particles

(2010) Aurélien J. Doucet et al.   PLoS Genetics

SIRT6 Links Histone H3 Lysine 9 Deacetylation to NF-κB-Dependent Gene Expression and Organismal Life Span

(2009) Tiara L.A. Kawahara et al.   CELL

Environmental influence on L1 retrotransposons in the adult hippocampus

(2009) Alysson R. Muotri et al.   HIPPOCAMPUS

Endogenous retroviral genes, Herpesviruses and gender in Multiple Sclerosis

(2009) Hervé Perron et al.   JOURNAL OF THE NEUROLOGICAL SCIENCES

Finding the missing heritability of complex diseases

(2009) Teri A. Manolio et al.   NATURE

L1 retrotransposition in human neural progenitor cells

(2009) Nicole G. Coufal et al.   NATURE

The regulated retrotransposon transcriptome of mammalian cells

(2009) Geoffrey J Faulkner et al.   NATURE GENETICS

Mutations involved in Aicardi-Goutières syndrome implicate SAMHD1 as regulator of the innate immune response

(2009) Gillian I Rice et al.   NATURE GENETICS

The impact of retrotransposons on human genome evolution

(2009) Richard Cordaux et al.   NATURE REVIEWS GENETICS

Analysis of transcribed human endogenous retrovirus W env loci clarifies the origin of multiple sclerosis-associated retrovirus env sequences

(2009) Georg Laufer et al.   Retrovirology

B cells and monocytes from patients with active multiple sclerosis exhibit increased surface expression of both HERV-H Env and HERV-W Env, accompanied by increased seroreactivity

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Retrotransposons Revisited: The Restraint and Rehabilitation of Parasites

(2008) John L. Goodier et al.   CELL

Trex1 Prevents Cell-Intrinsic Initiation of Autoimmunity

(2008) Daniel B. Stetson et al.   CELL

Aicardi–Goutières syndrome (AGS)

(2008) John B.P. Stephenson   EUROPEAN JOURNAL OF PAEDIATRIC NEUROLOGY

Active Alu retrotransposons in the human genome

(2008) E. A. Bennett et al.   GENOME RESEARCH

Evolution of the mammalian transcription factor binding repertoire via transposable elements

(2008) G. Bourque et al.   GENOME RESEARCH

Using Alu Elements as Polyadenylation Sites: A Case of Retroposon Exaptation

(2008) C. Chen et al.   MOLECULAR BIOLOGY AND EVOLUTION

A piRNA Pathway Primed by Individual Transposons Is Linked to De Novo DNA Methylation in Mice

(2008) Alexei A. Aravin et al.   MOLECULAR CELL

The impact of microRNAs on protein output

(2008) Daehyun Baek et al.   NATURE

Transposable elements and the evolution of regulatory networks

(2008) Cédric Feschotte   NATURE REVIEWS GENETICS

Phylogenetic analysis of mRNA polyadenylation sites reveals a role of transposable elements in evolution of the 3′-end of genes

(2008) Ju Youn Lee et al.   NUCLEIC ACIDS RESEARCH

Human cis natural antisense transcripts initiated by transposable elements

(2008) Andrew B. Conley et al.   TRENDS IN GENETICS