Comprehensive genomic analysis reveals dynamic evolution of endogenous retroviruses that code for retroviral-like protein domains

Transposable elements as genetic accelerators of evolution: contribution to genome size, gene regulatory network rewiring and morphological innovation

(2020) Hidenori Nishihara   GENES & GENETIC SYSTEMS

OUP accepted manuscript

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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

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Mammalian transposable elements and their impacts on genome evolution

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ERVmap analysis reveals genome-wide transcription of human endogenous retroviruses

(2018) Maria Tokuyama et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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Systematic identification and characterization of regulatory elements derived from human endogenous retroviruses

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(2016) Peter J. Thompson et al.   MOLECULAR CELL

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gEVE: a genome-based endogenous viral element database provides comprehensive viral protein-coding sequences in mammalian genomes

(2016) So Nakagawa et al.   Database-The Journal of Biological Databases and Curation

Coordinately Co-opted Multiple Transposable Elements Constitute an Enhancer for wnt5a Expression in the Mammalian Secondary Palate

(2016) Hidenori Nishihara et al.   PLoS Genetics

Genetic Evidence That Captured Retroviral Envelope syncytins Contribute to Myoblast Fusion and Muscle Sexual Dimorphism in Mice

(2016) François Redelsperger et al.   PLoS Genetics

A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project

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StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

(2015) Mihaela Pertea et al.   NATURE BIOTECHNOLOGY

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(2015) Daehwan Kim et al.   NATURE METHODS

A Novel Approach to High-Quality Postmortem Tissue Procurement: The GTEx Project

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(2015) Marina Lizio et al.   GENOME BIOLOGY

Repbase Update, a database of repetitive elements in eukaryotic genomes

(2015) Weidong Bao et al.   Mobile DNA

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Endogenous Retroviruses and the Development of Cancer

(2014) G. Kassiotis   JOURNAL OF IMMUNOLOGY

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Fematrin-1 Is Involved in Fetomaternal Cell-to-Cell Fusion in Bovinae Placenta and Has Contributed to Diversity of Ruminant Placentation

(2013) Y. Nakaya et al.   JOURNAL OF VIROLOGY

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Paleovirology of 'syncytins', retroviral env genes exapted for a role in placentation

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

A novel human endogenous retroviral protein inhibits cell-cell fusion

(2013) Jun Sugimoto et al.   Scientific Reports

A New Exon Derived from a Mammalian Apparent LTR Retrotransposon of theSUPT16HGene

(2013) Min-In Bae et al.   International Journal of Genomics

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

Understanding the language of Lys36 methylation at histone H3

(2012) Eric J. Wagner et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

From ancestral infectious retroviruses to bona fide cellular genes: Role of the captured syncytins in placentation

(2012) A. Dupressoir et al.   PLACENTA

SASPase regulates stratum corneum hydration through profilaggrin-to-filaggrin processing

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Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

No Evidence for Natural Selection on Endogenous Borna-Like Nucleoprotein Elements after the Divergence of Old World and New World Monkeys

(2011) Yuki Kobayashi et al.   PLoS One

Identification, characterization, and comparative genomic distribution of the HERV-K (HML-2) group of human endogenous retroviruses

(2011) Ravi P Subramanian et al.   Retrovirology

Repetitive Elements May Comprise Over Two-Thirds of the Human Genome

(2011) A. P. Jason de Koning et al.   PLoS Genetics

BEDTools: a flexible suite of utilities for comparing genomic features

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Involvement of human endogenous retroviral syncytin-1 in human osteoclast fusion

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What drives recombination hotspots to repeat DNA in humans?

(2010) G. McVean   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genome analysis of the platypus reveals unique signatures of evolution

(2008) Wesley C. Warren et al.   NATURE