The Role of Retrotransposons in Gene Family Expansions in the Human and Mouse Genomes

Transposable elements as agents of rapid adaptation may explain the genetic paradox of invasive species

(2015) Jessica Stapley et al.   MOLECULAR ECOLOGY

Genome-wide analyses of LINE–LINE-mediated nonallelic homologous recombination

(2015) Michał Startek et al.   NUCLEIC ACIDS RESEARCH

Human endogenous retroviral elements promote genome instability via non-allelic homologous recombination

(2014) Ian M Campbell et al.   BMC BIOLOGY

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

(2014) Vasavi Sundaram et al.   GENOME RESEARCH

Gene Ontology Consortium: going forward

(2014)   NUCLEIC ACIDS RESEARCH

Did Androgen-Binding Protein Paralogs Undergo Neo- and/or Subfunctionalization as the Abp Gene Region Expanded in the Mouse Genome?

(2014) Robert C. Karn et al.   PLoS One

Transposable element islands facilitate adaptation to novel environments in an invasive species

(2014) Lukas Schrader et al.   Nature Communications

The role of retrotransposons in gene family expansions: insights from the mouse Abp gene family

(2013) Václav Janoušek et al.   BMC EVOLUTIONARY BIOLOGY

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

(2013) Mingchao Xie et al.   NATURE GENETICS

The Mouse Genome Database: integration of and access to knowledge about the laboratory mouse

(2013) Judith A. Blake et al.   NUCLEIC ACIDS RESEARCH

The Majority of Primate-Specific Regulatory Sequences Are Derived from Transposable Elements

(2013) Pierre-Étienne Jacques et al.   PLoS Genetics

BEDOPS: high-performance genomic feature operations

(2012) Shane Neph et al.   BIOINFORMATICS

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

(2012) Dominic Schmidt et al.   CELL

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Gene duplication as a mechanism of genomic adaptation to a changing environment

(2012) F. A. Kondrashov   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Transposable Elements, Epigenetics, and Genome Evolution

(2012) N. V. Fedoroff   SCIENCE

Limits to the Rate of Adaptive Substitution in Sexual Populations

(2012) Daniel B. Weissman et al.   PLoS Genetics

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

(2012) Christoffer Nellåker et al.   GENOME BIOLOGY

An encyclopedia of mouse DNA elements (Mouse ENCODE)

(2012) et al.   GENOME BIOLOGY

Families of transposable elements, population structure and the origin of species

(2011) Jerzy Jurka et al.   Biology Direct

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Fast stable restricted maximum likelihood and marginal likelihood estimation of semiparametric generalized linear models

(2010) Simon N. Wood   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES B-STATISTICAL METHODOLOGY

Mammalian Evolution May not Be Strictly Bifurcating

(2010) B. M. Hallstrom et al.   MOLECULAR BIOLOGY AND EVOLUTION

Separating derived from ancestral features of mouse and human genomes

(2009) Chris P. Ponting et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Transposable elements in gene regulation and in the evolution of vertebrate genomes

(2009) Guillaume Bourque   CURRENT OPINION IN GENETICS & DEVELOPMENT

The Mechanism of Expansion and the Volatility it created in Three Pheromone Gene Clusters in the Mouse (Mus musculus) Genome

(2009) Robert C. Karn et al.   Genome Biology and Evolution

Mechanisms of change in gene copy number

(2009) P. J. Hastings et al.   NATURE REVIEWS GENETICS

Evolutionary rates and patterns for human transcription factor binding sites derived from repetitive DNA

(2008) Nalini Polavarapu et al.   BMC GENOMICS

The current excitement about copy-number variation: how it relates to gene duplications and protein families

(2008) Jan O Korbel et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Gene Dosage and Gene Duplicability

(2008) W. Qian et al.   GENETICS

EnsemblCompara GeneTrees: Complete, duplication-aware phylogenetic trees in vertebrates

(2008) A. J. Vilella et al.   GENOME RESEARCH

Analysis of copy number variants and segmental duplications in the human genome: Evidence for a change in the process of formation in recent evolutionary history

(2008) P. M. Kim et al.   GENOME RESEARCH

Evolution of the mammalian transcription factor binding repertoire via transposable elements

(2008) G. Bourque et al.   GENOME RESEARCH

Mouse segmental duplication and copy number variation

(2008) Xinwei She et al.   NATURE GENETICS

A universal classification of eukaryotic transposable elements implemented in Repbase

(2008) Vladimir V. Kapitonov et al.   NATURE REVIEWS GENETICS

Transposable elements and the evolution of regulatory networks

(2008) Cédric Feschotte   NATURE REVIEWS GENETICS

Double-strand breaks associated with repetitive DNA can reshape the genome

(2008) J. L. Argueso et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA