Noncanonical secondary structures arising from non-B DNA motifs are determinants of mutagenesis

Integrated genomic characterization of oesophageal carcinoma

(2017)   NATURE

Genomic hallmarks of localized, non-indolent prostate cancer

(2017) Michael Fraser et al.   NATURE

Short inverted repeats contribute to localized mutability in human somatic cells

(2017) Xueqing Zou et al.   NUCLEIC ACIDS RESEARCH

Alternative DNA structure formation in the mutagenic human c-MYC promoter

(2017) Imee Marie A. del Mundo et al.   NUCLEIC ACIDS RESEARCH

Permanganate/S1 Nuclease Footprinting Reveals Non-B DNA Structures with Regulatory Potential across a Mammalian Genome

(2017) Fedor Kouzine et al.   Cell Systems

Landscape of somatic mutations in 560 breast cancer whole-genome sequences

(2016) Serena Nik-Zainal et al.   NATURE

Triplex structures induce DNA double strand breaks via replication fork collapse in NER deficient cells

(2016) Meetu Kaushik Tiwari et al.   NUCLEIC ACIDS RESEARCH

Translocation and deletion breakpoints in cancer genomes are associated with potential non-B DNA-forming sequences

(2016) Albino Bacolla et al.   NUCLEIC ACIDS RESEARCH

Quantitative analysis and prediction of G-quadruplex forming sequences in double-stranded DNA

(2016) Minji Kim et al.   NUCLEIC ACIDS RESEARCH

The topography of mutational processes in breast cancer genomes

(2016) Sandro Morganella et al.   Nature Communications

Short loop length and high thermal stability determine genomic instability induced by G-quadruplex-forming minisatellites

(2015) A. Piazza et al.   EMBO JOURNAL

A Role for Non-B DNA Forming Sequences in Mediating Microlesions Causing Human Inherited Disease

(2015) Mihir Anant Kamat et al.   HUMAN MUTATION

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

Whole–genome characterization of chemoresistant ovarian cancer

(2015) Ann-Marie Patch et al.   NATURE

Cell-of-origin chromatin organization shapes the mutational landscape of cancer

(2015) Paz Polak et al.   NATURE

Whole genomes redefine the mutational landscape of pancreatic cancer

(2015) Nicola Waddell et al.   NATURE

Mutagenic consequences of a single G-quadruplex demonstrate mitotic inheritance of DNA replication fork barriers

(2015) Bennie Lemmens et al.   Nature Communications

Short Inverted Repeats Are Hotspots for Genetic Instability: Relevance to Cancer Genomes

(2015) Steve Lu et al.   Cell Reports

Genome-wide analysis of noncoding regulatory mutations in cancer

(2014) Nils Weinhold et al.   NATURE GENETICS

Systematic analysis of noncoding somatic mutations and gene expression alterations across 14 tumor types

(2014) Nils J Fredriksson et al.   NATURE GENETICS

G-quadruplex conformation and dynamics are determined by loop length and sequence

(2014) Ramreddy Tippana et al.   NUCLEIC ACIDS RESEARCH

deepTools: a flexible platform for exploring deep-sequencing data

(2014) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

A Polymerase Theta-dependent repair pathway suppresses extensive genomic instability at endogenous G4 DNA sites

(2014) Wouter Koole et al.   Nature Communications

Selective Inhibition of Tumor Oncogenes by Disruption of Super-Enhancers

(2013) Jakob Lovén et al.   CELL

Mutational heterogeneity in cancer and the search for new cancer-associated genes

(2013) Michael S. Lawrence et al.   NATURE

Quantitative visualization of DNA G-quadruplex structures in human cells

(2013) Giulia Biffi et al.   Nature Chemistry

The genome-wide distribution of non-B DNA motifs is shaped by operon structure and suggests the transcriptional importance of non-B DNA structures in Escherichia coli

(2013) Xiangjun Du et al.   NUCLEIC ACIDS RESEARCH

Fragile DNA Motifs Trigger Mutagenesis at Distant Chromosomal Loci in Saccharomyces cerevisiae

(2013) Natalie Saini et al.   PLoS Genetics

Chromatin organization is a major influence on regional mutation rates in human cancer cells

(2012) Benjamin Schuster-Böckler et al.   NATURE

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Unsupervised pattern discovery in human chromatin structure through genomic segmentation

(2012) Michael M Hoffman et al.   NATURE METHODS

Non-B DB v2.0: a database of predicted non-B DNA-forming motifs and its associated tools

(2012) Regina Z. Cer et al.   NUCLEIC ACIDS RESEARCH

Integrative annotation of chromatin elements from ENCODE data

(2012) Michael M. Hoffman et al.   NUCLEIC ACIDS RESEARCH

Direct and Inverted Repeats Elicit Genetic Instability by Both Exploiting and Eluding DNA Double-Strand Break Repair Systems in Mycobacteria

(2012) Ewelina A. Wojcik et al.   PLoS One

DNA secondary structures and epigenetic determinants of cancer genome evolution

(2011) Subhajyoti De et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

International network of cancer genome projects

(2010) Thomas J. Hudson (Chairperson) et al.   NATURE

Human mutation rate associated with DNA replication timing

(2009) John A Stamatoyannopoulos et al.   NATURE GENETICS

G-quadruplex structures: in vivo evidence and function

(2009) Hans J. Lipps et al.   TRENDS IN CELL BIOLOGY

DNA Structure-induced Genomic Instability In Vivo

(2008) Guliang Wang et al.   JNCI-Journal of the National Cancer Institute

Replication stalling at unstable inverted repeats: Interplay between DNA hairpins and fork stabilizing proteins

(2008) I. Voineagu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA