How do mammalian transposons induce genetic variation? A conceptual framework

Transposable Elements: An Abundant and Natural Source of Regulatory Sequences for Host Genes

(2012) Rita Rebollo et al.   Annual Review of Genetics

Endogenous retroviruses in mammals: An emerging picture of how ERVs modify expression of adjacent genes

(2012) Luke Isbel et al.   BIOESSAYS

Single-Neuron Sequencing Analysis of L1 Retrotransposition and Somatic Mutation in the Human Brain

(2012) Gilad D. Evrony et al.   CELL

Waves of Retrotransposon Expansion Remodel Genome Organization and CTCF Binding in Multiple Mammalian Lineages

(2012) Dominic Schmidt et al.   CELL

Active human retrotransposons: variation and disease

(2012) Dustin C Hancks et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Retrotransposons as a major source of epigenetic variations in the mammalian genome

(2012) Muhammad B. Ekram et al.   Epigenetics

Survey Sequencing Reveals Elevated DNA Transposon Activity, Novel Elements, and Variation in Repetitive Landscapes among Vesper Bats

(2012) H. J. T. Pagan et al.   Genome Biology and Evolution

Mouse endogenous retroviruses can trigger premature transcriptional termination at a distance

(2012) J. Li et al.   GENOME RESEARCH

Extensive somatic L1 retrotransposition in colorectal tumors

(2012) S. Solyom et al.   GENOME RESEARCH

Landscape of transcription in human cells

(2012) Sarah Djebali et al.   NATURE

The accessible chromatin landscape of the human genome

(2012) Robert E. Thurman et al.   NATURE

Topological domains in mammalian genomes identified by analysis of chromatin interactions

(2012) Jesse R. Dixon et al.   NATURE

hnRNPL and nucleolin bind LINE-1 RNA and function as host factors to modulate retrotransposition

(2012) Suresh Peddigari et al.   NUCLEIC ACIDS RESEARCH

Microarray-Based Sketches of the HERV Transcriptome Landscape

(2012) Philippe Pérot et al.   PLoS One

29 Mammalian Genomes Reveal Novel Exaptations of Mobile Elements for Likely Regulatory Functions in the Human Genome

(2012) Craig B. Lowe et al.   PLoS One

Mutation in a primate-conserved retrotransposon reveals a noncoding RNA as a mediator of infantile encephalopathy

(2012) F. Cartault et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Landscape of Somatic Retrotransposition in Human Cancers

(2012) E. Lee et al.   SCIENCE

A new branch on the tree: Next-generation sequencing in the study of cancer evolution

(2012) Jacqueline A. Brosnan et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

The genomic landscape shaped by selection on transposable elements across 18 mouse strains

(2012) Christoffer Nellåker et al.   GENOME BIOLOGY

Impact of Alu repeats on the evolution of human p53 binding sites

(2011) Feng Cui et al.   Biology Direct

Genome Sequencing of Mouse Induced Pluripotent Stem Cells Reveals Retroelement Stability and Infrequent DNA Rearrangement during Reprogramming

(2011) Aaron R. Quinlan et al.   Cell Stem Cell

Retrotransposition of marked SVA elements by human L1s in cultured cells

(2011) Dustin C. Hancks et al.   HUMAN MOLECULAR GENETICS

Reprogramming somatic cells into iPS cells activates LINE-1 retroelement mobility

(2011) Silke Wissing et al.   HUMAN MOLECULAR GENETICS

lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3′ UTRs via Alu elements

(2011) Chenguang Gong et al.   NATURE

Somatic retrotransposition alters the genetic landscape of the human brain

(2011) J. Kenneth Baillie et al.   NATURE

The evolution of gene expression levels in mammalian organs

(2011) David Brawand et al.   NATURE

Mouse genomic variation and its effect on phenotypes and gene regulation

(2011) Thomas M. Keane et al.   NATURE

Dynamic interactions between transposable elements and their hosts

(2011) Henry L. Levin et al.   NATURE REVIEWS GENETICS

Enhancers in embryonic stem cells are enriched for transposable elements and genetic variations associated with cancers

(2011) Li Teng et al.   NUCLEIC ACIDS RESEARCH

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

(2011) N. G. Coufal et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Retrotransposon-Induced Heterochromatin Spreading in the Mouse Revealed by Insertional Polymorphisms

(2011) Rita Rebollo et al.   PLoS Genetics

A Comprehensive Map of Mobile Element Insertion Polymorphisms in Humans

(2011) Chip Stewart et al.   PLoS Genetics

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

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

Assessment of genetic variation for the LINE-1 retrotransposon from next generation sequence data

(2010) Eric Rouchka et al.   BMC BIOINFORMATICS

Natural Mutagenesis of Human Genomes by Endogenous Retrotransposons

(2010) Rebecca C. Iskow et al.   CELL

Whole-genome resequencing allows detection of many rare LINE-1 insertion alleles in humans

(2010) A. D. Ewing et al.   GENOME RESEARCH

Genome architecture marked by retrotransposons modulates predisposition to DNA methylation in cancer

(2010) M. R. H. Estecio et al.   GENOME RESEARCH

Genome-wide mapping and assembly of structural variant breakpoints in the mouse genome

(2010) A. R. Quinlan et al.   GENOME RESEARCH

Epigenetic silencing of engineered L1 retrotransposition events in human embryonic carcinoma cells

(2010) Jose L. Garcia-Perez et al.   NATURE

L1 retrotransposition in neurons is modulated by MeCP2

(2010) Alysson R. Muotri et al.   NATURE

Proviral silencing in embryonic stem cells requires the histone methyltransferase ESET

(2010) Toshiyuki Matsui et al.   NATURE

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

(2010) Galih Kunarso et al.   NATURE GENETICS

Derepression of an endogenous long terminal repeat activates the CSF1R proto-oncogene in human lymphoma

(2010) Björn Lamprecht et al.   NATURE MEDICINE

Demethylation of a LINE-1 antisense promoter in the cMet locus impairs Met signalling through induction of illegitimate transcription

(2010) B Weber et al.   ONCOGENE

CpG Methylation of a Silent Controlling Element in the Murine Avy Allele Is Incomplete and Unresponsive to Methyl Donor Supplementation

(2010) Jennifer E. Cropley et al.   PLoS One

Characteristics of Transposable Element Exonization within Human and Mouse

(2010) Noa Sela et al.   PLoS One

A Transposon in Comt Generates mRNA Variants and Causes Widespread Expression and Behavioral Differences among Mice

(2010) Zhengsheng Li et al.   PLoS One

LINE-1 retrotransposons: mediators of somatic variation in neuronal genomes?

(2010) Tatjana Singer et al.   TRENDS IN NEUROSCIENCES

L1 retrotransposition occurs mainly in embryogenesis and creates somatic mosaicism

(2009) H. Kano et al.   GENES & DEVELOPMENT

A novel active endogenous retrovirus family contributes to genome variability in rat inbred strains

(2009) Y. Wang et al.   GENOME RESEARCH

Mobile elements create structural variation: Analysis of a complete human genome

(2009) J. Xing et al.   GENOME RESEARCH

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

The impact of retrotransposons on human genome evolution

(2009) Richard Cordaux et al.   NATURE REVIEWS GENETICS

MouseIndelDB: a database integrating genomic indel polymorphisms that distinguish mouse strains

(2009) K. Akagi et al.   NUCLEIC ACIDS RESEARCH

p53 responsive elements in human retrotransposons

(2009) C R Harris et al.   ONCOGENE

Many LINE1 elements contribute to the transcriptome of human somatic cells

(2009) Sanjida H Rangwala et al.   GENOME BIOLOGY

Effects of Retroviruses on Host Genome Function

(2008) Patric Jern et al.   Annual Review of Genetics

The Take and Give Between Retrotransposable Elements and their Hosts

(2008) Arthur Beauregard et al.   Annual Review of Genetics

The impact of multiple splice sites in human L1 elements

(2008) V.P. Belancio et al.   GENE

SMD and NMD are competitive pathways that contribute to myogenesis: effects on PAX3 and myogenin mRNAs

(2008) C. Gong et al.   GENES & DEVELOPMENT

Extensive variation between inbred mouse strains due to endogenous L1 retrotransposition

(2008) K. Akagi et al.   GENOME RESEARCH

Mammalian non-LTR retrotransposons: For better or worse, in sickness and in health

(2008) V. P. Belancio et al.   GENOME RESEARCH

Multiple waves of recent DNA transposon activity in the bat, Myotis lucifugus

(2008) D. A. Ray et al.   GENOME RESEARCH

Evolution of the mammalian transcription factor binding repertoire via transposable elements

(2008) G. Bourque et al.   GENOME RESEARCH

Transposable elements and the evolution of regulatory networks

(2008) Cédric Feschotte   NATURE REVIEWS GENETICS

Genome-Wide Assessments Reveal Extremely High Levels of Polymorphism of Two Active Families of Mouse Endogenous Retroviral Elements

(2008) Ying Zhang et al.   PLoS Genetics

Intronic Alus Influence Alternative Splicing

(2008) Galit Lev-Maor et al.   PLoS Genetics