Genome-wide mapping of endogenous G-quadruplex DNA structures by chromatin immunoprecipitation and high-throughput sequencing

DNA G-quadruplexes in the human genome: detection, functions and therapeutic potential

(2017) Robert Hänsel-Hertsch et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

CX-5461 is a DNA G-quadruplex stabilizer with selective lethality in BRCA1/2 deficient tumours

(2017) Hong Xu et al.   Nature Communications

Quadruplex Nucleic Acids as Novel Therapeutic Targets

(2016) Stephen Neidle   JOURNAL OF MEDICINAL CHEMISTRY

G-quadruplex structures mark human regulatory chromatin

(2016) Robert Hänsel-Hertsch et al.   NATURE GENETICS

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

G-quadruplexes and helicases

(2016) Oscar Mendoza et al.   NUCLEIC ACIDS RESEARCH

Re-evaluation of G-quadruplex propensity with G4Hunter

(2016) Amina Bedrat et al.   NUCLEIC ACIDS RESEARCH

Single-cell ChIP-seq reveals cell subpopulations defined by chromatin state

(2015) Assaf Rotem et al.   NATURE BIOTECHNOLOGY

High-throughput sequencing of DNA G-quadruplex structures in the human genome

(2015) Vicki S Chambers et al.   NATURE BIOTECHNOLOGY

ChIPmentation: fast, robust, low-input ChIP-seq for histones and transcription factors

(2015) Christian Schmidl et al.   NATURE METHODS

Rif1 binds to G quadruplexes and suppresses replication over long distances

(2015) Yutaka Kanoh et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Standardizing chromatin research: a simple and universal method for ChIP-seq

(2015) Laura Arrigoni et al.   NUCLEIC ACIDS RESEARCH

G-quadruplexes and their regulatory roles in biology

(2015) Daniela Rhodes et al.   NUCLEIC ACIDS RESEARCH

Rif1 binds to G quadruplexes and suppresses replication over long distances

(2015) Yutaka Kanoh et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

G quadruplexes are genomewide targets of transcriptional helicases XPB and XPD

(2014) Lucas T Gray et al.   Nature Chemical Biology

Identifying and mitigating bias in next-generation sequencing methods for chromatin biology

(2014) Clifford A. Meyer et al.   NATURE REVIEWS GENETICS

Elevated Levels of G-Quadruplex Formation in Human Stomach and Liver Cancer Tissues

(2014) Giulia Biffi et al.   PLoS One

Bulges in G-Quadruplexes: Broadening the Definition of G-Quadruplex-Forming Sequences

(2013) Vineeth Thachappilly Mukundan et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Pif1 family helicases suppress genome instability at G-quadruplex motifs

(2013) Katrin Paeschke et al.   NATURE

Quantitative visualization of DNA G-quadruplex structures in human cells

(2013) Giulia Biffi et al.   Nature Chemistry

Detection of G-quadruplex DNA in mammalian cells

(2013) A. Henderson et al.   NUCLEIC ACIDS RESEARCH

G-quadruplex structures are stable and detectable in human genomic DNA

(2013) Enid Yi Ni Lam et al.   Nature Communications

The G4 Genome

(2013) Nancy Maizels et al.   PLoS Genetics

RTEL1 Dismantles T Loops and Counteracts Telomeric G4-DNA to Maintain Telomere Integrity

(2012) Jean-Baptiste Vannier et al.   CELL

R-Loop Formation Is a Distinctive Characteristic of Unmethylated Human CpG Island Promoters

(2012) Paul A. Ginno et al.   MOLECULAR CELL

The accessible chromatin landscape of the human genome

(2012) Robert E. Thurman et al.   NATURE

Small-molecule–induced DNA damage identifies alternative DNA structures in human genes

(2012) Raphaël Rodriguez et al.   Nature Chemical Biology

ChIP–seq and beyond: new and improved methodologies to detect and characterize protein–DNA interactions

(2012) Terrence S. Furey   NATURE REVIEWS GENETICS

DNA secondary structures: stability and function of G-quadruplex structures

(2012) Matthew L. Bochman et al.   NATURE REVIEWS GENETICS

A hybrid G-quadruplex structure formed between RNA and DNA explains the extraordinary stability of the mitochondrial R-loop

(2012) P. H. Wanrooij et al.   NUCLEIC ACIDS RESEARCH

MEME-ChIP: motif analysis of large DNA datasets

(2011) Philip Machanick et al.   BIOINFORMATICS

FIMO: scanning for occurrences of a given motif

(2011) Charles E. Grant et al.   BIOINFORMATICS

DNA Replication through G-Quadruplex Motifs Is Promoted by the Saccharomyces cerevisiae Pif1 DNA Helicase

(2011) Katrin Paeschke et al.   CELL

Comprehensive Genome-wide Protein-DNA Interactions Detected at Single-Nucleotide Resolution

(2011) Ho Sung Rhee et al.   CELL

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

ATR-X Syndrome Protein Targets Tandem Repeats and Influences Allele-Specific Expression in a Size-Dependent Manner

(2010) Martin J. Law et al.   CELL

Epigenetic Instability due to Defective Replication of Structured DNA

(2010) Peter Sarkies et al.   MOLECULAR CELL

Rapid, low-input, low-bias construction of shotgun fragment libraries by high-density in vitro transposition

(2010) Andrew Adey et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

ChIP-seq: Using high-throughput sequencing to discover protein–DNA interactions

(2009) Dominic Schmidt et al.   METHODS

Impact of Chromatin Structures on DNA Processing for Genomic Analyses

(2009) Leonid Teytelman et al.   PLoS One

The Yeast Pif1 Helicase Prevents Genomic Instability Caused by G-Quadruplex-Forming CEB1 Sequences In Vivo

(2009) Cyril Ribeyre et al.   PLoS Genetics

Telomerase recruitment by the telomere end binding protein-β facilitates G-quadruplex DNA unfolding in ciliates

(2008) Katrin Paeschke et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY