The cancer-associated CTCFL/BORIS protein targets multiple classes of genomic repeats, with a distinct binding and functional preference for humanoid-specific SVA transposable elements

3D Chromosome Regulatory Landscape of Human Pluripotent Cells

(2016) Xiong Ji et al.   Cell Stem Cell

The genomic characteristics and cellular origin of chromothripsis

(2016) Zuzana Storchová et al.   CURRENT OPINION IN CELL BIOLOGY

Systematic identification of genes with a cancer-testis expression pattern in 19 cancer types

(2016) Cheng Wang et al.   Nature Communications

Reprogramming triggers endogenous L1 and Alu retrotransposition in human induced pluripotent stem cells

(2016) Sabine Klawitter et al.   Nature Communications

Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions

(2015) Darío G. Lupiáñez et al.   CELL

A Unique Gene Regulatory Network Resets the Human Germline Epigenome for Development

(2015) Walfred W.C. Tang et al.   CELL

Genomic discovery of potent chromatin insulators for human gene therapy

(2015) Mingdong Liu et al.   NATURE BIOTECHNOLOGY

Retrotransposon insertions in the clonal evolution of pancreatic ductal adenocarcinoma

(2015) Nemanja Rodić et al.   NATURE MEDICINE

Evolutionary comparison reveals that diverging CTCF sites are signatures of ancestral topological associating domains borders

(2015) Carlos Gómez-Marín et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Role of DNA Methylation in Modulating Transcription Factor Occupancy

(2015) Matthew T. Maurano et al.   Cell Reports

Transposable elements at the center of the crossroads between embryogenesis, embryonic stem cells, reprogramming, and long non-coding RNAs

(2015) Andrew Paul Hutchins et al.   Science Bulletin

Different Effects of BORIS/CTCFL on Stemness Gene Expression, Sphere Formation and Cell Survival in Epithelial Cancer Stem Cells

(2015) Loredana Alberti et al.   PLoS One

Mechanisms of transcriptional dysregulation in repeat expansion disorders

(2014) Matthias Groh et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Narrowing the localization of the region breakpoint in most frequent Robertsonian translocations

(2014) Malgorzata Jarmuz-Szymczak et al.   CHROMOSOME RESEARCH

Repeat associated non-ATG (RAN) translation: new starts in microsatellite expansion disorders

(2014) John Douglas Cleary et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

DNA methylation dynamics during epigenetic reprogramming in the germline and preimplantation embryos

(2014) D. M. Messerschmidt et al.   GENES & DEVELOPMENT

Subtelomeric CTCF and cohesin binding site organization using improved subtelomere assemblies and a novel annotation pipeline

(2014) N. Stong et al.   GENOME RESEARCH

Mislocalization of the Centromeric Histone Variant CenH3/CENP-A in Human Cells Depends on the Chaperone DAXX

(2014) Nicolas Lacoste et al.   MOLECULAR CELL

Genomics: Something to swing about

(2014) Michael J. O'Neill et al.   NATURE

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

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

Gibbon genome and the fast karyotype evolution of small apes

(2014) Lucia Carbone et al.   NATURE

Comprehensive characterization of complex structural variations in cancer by directly comparing genome sequence reads

(2014) Valentí Moncunill et al.   NATURE BIOTECHNOLOGY

CTCF: an architectural protein bridging genome topology and function

(2014) Chin-Tong Ong et al.   NATURE REVIEWS GENETICS

CTCF induces histone variant incorporation, erases the H3K27me3 histone mark and opens chromatin

(2014) Oliver Weth et al.   NUCLEIC ACIDS RESEARCH

An Evaluation of a SVA Retrotransposon in the FUS Promoter as a Transcriptional Regulator and Its Association to ALS

(2014) Abigail L. Savage et al.   PLoS One

High Expression of hTERT and Stemness Genes in BORIS/CTCFL Positive Cells Isolated from Embryonic Cancer Cells

(2014) Loredana Alberti et al.   PLoS One

Recombination initiation maps of individual human genomes

(2014) F. Pratto et al.   SCIENCE

Co-binding by YY1 identifies the transcriptionally active, highly conserved set of CTCF-bound regions in primate genomes

(2014) Petra C Schwalie et al.   GENOME BIOLOGY

SVA retrotransposon insertion-associated deletion represents a novel mutational mechanism underlying large genomic copy number changes with non-recurrent breakpoints

(2014) Julia Vogt et al.   GENOME BIOLOGY

Retrotransposition in tumors and brains

(2014) John L Goodier   Mobile DNA

D4Z4as a prototype of CTCF and lamins-dependent insulator in human cells

(2014) Alexandre Ottaviani et al.   Nucleus

Architectural Protein Subclasses Shape 3D Organization of Genomes during Lineage Commitment

(2013) Jennifer E. Phillips-Cremins et al.   CELL

Functional impact of the human mobilome

(2013) Timothy D Babatz et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

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

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

Chromothripsis and beyond: rapid genome evolution from complex chromosomal rearrangements

(2013) C.-Z. Zhang et al.   GENES & DEVELOPMENT

Nucleotide-resolution DNA double-strand break mapping by next-generation sequencing

(2013) Nicola Crosetto et al.   NATURE METHODS

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

(2013) Ke Zhao et al.   Cell Reports

Active Transposition in Genomes

(2012) Cheng Ran Lisa Huang et al.   Annual Review of Genetics

Circuitry and Dynamics of Human Transcription Factor Regulatory Networks

(2012) Shane Neph 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

A role for CTCF and cohesin in subtelomere chromatin organization, TERRA transcription, and telomere end protection

(2012) Zhong Deng et al.   EMBO JOURNAL

Transposon-Derived and Satellite-Derived Repetitive Sequences Play Distinct Functional Roles in Mammalian Intron Size Expansion

(2012) Dapeng Wang et al.   Evolutionary Bioinformatics

Transcriptional regulation of human-specific SVAF1 retrotransposons by cis-regulatory MAST2 sequences

(2012) Anastasia A. Zabolotneva et al.   GENE

Widespread plasticity in CTCF occupancy linked to DNA methylation

(2012) H. Wang et al.   GENOME RESEARCH

The macrosatellite DXZ4 mediates CTCF-dependent long-range intrachromosomal interactions on the human inactive X chromosome

(2012) Andrea H. Horakova et al.   HUMAN MOLECULAR GENETICS

Epigenetic engineering: histone H3K9 acetylation is compatible with kinetochore structure and function

(2012) J. H. Bergmann et al.   JOURNAL OF CELL SCIENCE

The Minimal Active Human SVA Retrotransposon Requires Only the 5'-Hexamer and Alu-Like Domains

(2012) D. C. Hancks et al.   MOLECULAR AND CELLULAR BIOLOGY

SINE Retrotransposons Cause Epigenetic Reprogramming of Adjacent Gene Promoters

(2012) M. R. H. Estecio et al.   MOLECULAR CANCER RESEARCH

The long-range interaction landscape of gene promoters

(2012) Amartya Sanyal et al.   NATURE

Epigenetic polymorphism and the stochastic formation of differentially methylated regions in normal and cancerous tissues

(2012) Gilad Landan et al.   NATURE GENETICS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Genome-wide nucleosome positioning during embryonic stem cell development

(2012) Vladimir B Teif et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A SINE-Derived Element Constitutes a Unique Modular Enhancer for Mammalian Diencephalic Fgf8

(2012) Akiko Nakanishi et al.   PLoS One

Tcra gene recombination is supported by a Tcra enhancer- and CTCF-dependent chromatin hub

(2012) H.-Y. Shih 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

The male germ cell gene regulator CTCFL is functionally different from CTCF and binds CTCF-like consensus sites in a nucleosome composition-dependent manner

(2012) Frank Sleutels et al.   Epigenetics & Chromatin

Tethering of the Conserved piggyBac Transposase Fusion Protein CSB-PGBD3 to Chromosomal AP-1 Proteins Regulates Expression of Nearby Genes in Humans

(2012) Lucas T. Gray et al.   PLoS Genetics

Epigenetic interplay between mouse endogenous retroviruses and host genes

(2012) Rita Rebollo et al.   GENOME BIOLOGY

The mouse DXZ4 homolog retains Ctcf binding and proximity to Pls3 despite substantial organizational differences compared to the primate macrosatellite

(2012) Andrea H Horakova et al.   GENOME BIOLOGY

A repetitive elements perspective in Polycomb epigenetics

(2012) Valentina Casa et al.   Frontiers in Genetics

Chromatin loops, gene positioning, and gene expression

(2012) Sjoerd Holwerda et al.   Frontiers in Genetics

Massive Genomic Rearrangement Acquired in a Single Catastrophic Event during Cancer Development

(2011) Philip J. Stephens et al.   CELL

Condensin dysfunction in human cells induces nonrandom chromosomal breaks in anaphase, with distinct patterns for both unique and repeated genomic regions

(2011) Alexander Samoshkin et al.   CHROMOSOMA

BORIS Binding to the Promoters of Cancer Testis Antigens, MAGEA2, MAGEA3, and MAGEA4, Is Associated with Their Transcriptional Activation in Lung Cancer

(2011) S. Bhan et al.   CLINICAL CANCER RESEARCH

Retrotransposition of marked SVA elements by human L1s in cultured cells

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

Transcription Factor BORIS (Brother of the Regulator of Imprinted Sites) Directly Induces Expression of a Cancer-Testis Antigen, TSP50, through Regulated Binding of BORIS to the Promoter

(2011) Natsuki Kosaka-Suzuki et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Somatic retrotransposition alters the genetic landscape of the human brain

(2011) J. Kenneth Baillie et al.   NATURE

CTCF-mediated functional chromatin interactome in pluripotent cells

(2011) Lusy Handoko et al.   NATURE GENETICS

The non-autonomous retrotransposon SVA is trans -mobilized by the human LINE-1 protein machinery

(2011) Julija Raiz et al.   NUCLEIC ACIDS RESEARCH

LINE-1 Hypomethylation During Primary Colon Cancer Progression

(2011) Eiji Sunami et al.   PLoS One

Aberrant Overexpression of Satellite Repeats in Pancreatic and Other Epithelial Cancers

(2011) D. T. Ting et al.   SCIENCE

A Comprehensive Map of Mobile Element Insertion Polymorphisms in Humans

(2011) Chip Stewart et al.   PLoS Genetics

Identification of human-specific transcript variants induced by DNA insertions in the human genome

(2010) Dong Seon Kim et al.   BIOINFORMATICS

Jumping genes and epigenetics: Towards new species

(2010) Rita Rebollo et al.   GENE

Expression of a Testis-Specific Form of Gal3st1 (CST), a Gene Essential for Spermatogenesis, Is Regulated by the CTCF Paralogous Gene BORIS

(2010) T. Suzuki et al.   MOLECULAR AND CELLULAR BIOLOGY

seqMINER: an integrated ChIP-seq data interpretation platform

(2010) Tao Ye et al.   NUCLEIC ACIDS RESEARCH

SVA retrotransposons: Evolution and genetic instability

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

All y’all need to know ‘bout retroelements in cancer

(2010) Victoria P. Belancio et al.   SEMINARS IN CANCER BIOLOGY

CTCF regulates the local epigenetic state of ribosomal DNA repeats

(2010) Suzanne van de Nobelen et al.   Epigenetics & Chromatin

Exon-trapping mediated by the human retrotransposon SVA

(2009) D. C. Hancks et al.   GENOME RESEARCH

5'-Transducing SVA retrotransposon groups spread efficiently throughout the human genome

(2009) A. Damert et al.   GENOME RESEARCH

DZNep is a global histone methylation inhibitor that reactivates developmental genes not silenced by DNA methylation

(2009) T. B. Miranda et al.   MOLECULAR CANCER THERAPEUTICS

The RNA Polymerase Dictates ORF1 Requirement and Timing of LINE and SINE Retrotransposition

(2009) Emily N. Kroutter et al.   PLoS Genetics

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Selective apoptosis of breast cancer cells by siRNA targeting of BORIS

(2008) Christopher J. Dougherty et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Evolution of the mammalian transcription factor binding repertoire via transposable elements

(2008) G. Bourque et al.   GENOME RESEARCH

Modes of action of the DNA methyltransferase inhibitors azacytidine and decitabine

(2008) Carlo Stresemann et al.   INTERNATIONAL JOURNAL OF CANCER

The human genome in the LINE of fire

(2008) R. Cordaux   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

L1 recombination-associated deletions generate human genomic variation

(2008) K. Han et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PTEN-deficient cancers depend on PIK3CB

(2008) S. Wee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA