Long-read sequencing technology indicates genome-wide effects of non-B DNA on polymerization speed and error rate

IWTomics: testing high-resolution sequence-based ‘Omics’ data at multiple locations and scales

(2018) Marzia A Cremona et al.   BIOINFORMATICS

Interval-wise testing for functional data

(2017) A. Pini et al.   JOURNAL OF NONPARAMETRIC STATISTICS

Clustered abasic lesions profoundly change the structure and stability of human telomeric G-quadruplexes

(2017) Iva Kejnovská et al.   NUCLEIC ACIDS RESEARCH

Structure, properties, and biological relevance of the DNA and RNA G-quadruplexes: Overview 50 years after their discovery

(2016) N. G. Dolinnaya et al.   BIOCHEMISTRY-MOSCOW

G-Quadruplexes in DNA Replication: A Problem or a Necessity?

(2016) Anne-Laure Valton et al.   TRENDS IN GENETICS

Integration and Fixation Preferences of Human and Mouse Endogenous Retroviruses Uncovered with Functional Data Analysis

(2016) Rebeca Campos-Sánchez et al.   PLoS Computational Biology

Extensive sequencing of seven human genomes to characterize benchmark reference materials

(2016) Justin M. Zook et al.   Scientific Data

Evidence for the Kinetic Partitioning of Polymerase Activity on G-Quadruplex DNA

(2015) Sarah Eddy et al.   BIOCHEMISTRY

Exploring possible DNA structures in real-time polymerase kinetics using Pacific Biosciences sequencer data

(2015) Sterling Sawaya et al.   BMC BIOINFORMATICS

G4-associated human diseases

(2015) N. Maizels   EMBO REPORTS

G-quadruplexes: Emerging roles in neurodegenerative diseases and the non-coding transcriptome

(2015) Roberto Simone et al.   FEBS LETTERS

Accurate typing of short tandem repeats from genome-wide sequencing data and its applications

(2015) Arkarachai Fungtammasan et al.   GENOME RESEARCH

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

(2015) Mihir Anant Kamat et al.   HUMAN MUTATION

A global reference for human genetic variation

(2015) Richard A. Gibbs et al.   NATURE

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

(2015) Vicki S Chambers et al.   NATURE BIOTECHNOLOGY

The effects of chromatin organization on variation in mutation rates in the genome

(2015) Kateryna D. Makova et al.   NATURE REVIEWS GENETICS

PacBio Sequencing and Its Applications

(2015) Anthony Rhoads et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Potential non-B DNA regions in the human genome are associated with higher rates of nucleotide mutation and expression variation

(2014) Xiangjun Du et al.   NUCLEIC ACIDS RESEARCH

Microsatellite Interruptions Stabilize Primate Genomes and Exist as Population-Specific Single Nucleotide Polymorphisms within Individual Human Genomes

(2014) Guruprasad Ananda et al.   PLoS Genetics

Microsatellite Tandem Repeats Are Abundant in Human Promoters and Are Associated with Regulatory Elements

(2013) Sterling Sawaya et al.   PLoS One

Two sequential cleavage reactions on cruciform DNA structures cause palindrome-mediated chromosomal translocations

(2013) Hidehito Inagaki et al.   Nature Communications

Modeling kinetic rate variation in third generation DNA sequencing data to detect putative modifications to DNA bases

(2012) E. E. Schadt et al.   GENOME RESEARCH

Sequencing the unsequenceable: Expanded CGG-repeat alleles of the fragile X gene

(2012) E. W. Loomis et al.   GENOME RESEARCH

Unraveling cell type–specific and reprogrammable human replication origin signatures associated with G-quadruplex consensus motifs

(2012) Emilie Besnard et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

Distal chromatin structure influences local nucleosome positions and gene expression

(2012) An Jansen et al.   NUCLEIC ACIDS RESEARCH

On the sequence-directed nature of human gene mutation: The role of genomic architecture and the local DNA sequence environment in mediating gene mutations underlying human inherited disease

(2011) David N. Cooper et al.   HUMAN MUTATION

Non-B DNA-forming Sequences and WRN Deficiency Independently Increase the Frequency of Base Substitution in Human Cells

(2011) Albino Bacolla et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Comparative and demographic analysis of orang-utan genomes

(2011) Devin P. Locke et al.   NATURE

Targeting G-quadruplexes in gene promoters: a novel anticancer strategy?

(2011) Shankar Balasubramanian et al.   NATURE REVIEWS DRUG DISCOVERY

Variation in the mutation rate across mammalian genomes

(2011) Alan Hodgkinson et al.   NATURE REVIEWS GENETICS

A Hexanucleotide Repeat Expansion in C9ORF72 Is the Cause of Chromosome 9p21-Linked ALS-FTD

(2011) Alan E. Renton et al.   NEURON

Direct detection of DNA methylation during single-molecule, real-time sequencing

(2010) Benjamin A Flusberg et al.   NATURE METHODS

Repeat instability as the basis for human diseases and as a potential target for therapy

(2010) Arturo López Castel et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Resolution and characterization of the structural polymorphism of a single quadruplex-forming sequence

(2010) Magdalena M. Dailey et al.   NUCLEIC ACIDS RESEARCH

Mechanisms and implications of transcription blockage by guanine-rich DNA sequences

(2010) B. P. Belotserkovskii et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Non-B DNA structure-induced genetic instability and evolution

(2009) Junhua Zhao et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Circular dichroism and conformational polymorphism of DNA

(2009) J. Kypr et al.   NUCLEIC ACIDS RESEARCH

Hypothesis Tests for Point-Mass Mixture Data with Application to `Omics Data with Many Zero Values

(2009) Sandra Taylor et al.   Statistical Applications in Genetics and Molecular Biology

Single-stranded DNA-binding Proteinin VitroEliminates the Orientation-dependent Impediment to Polymerase Passage on CAG/CTG Repeats

(2008) Emmanuelle Delagoutte et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

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

Real-Time DNA Sequencing from Single Polymerase Molecules

(2008) J. Eid et al.   SCIENCE

Discovery of alternative DNA structures: a heroic decade (1979-1989)

(2007) Sergei et al.   Frontiers in Bioscience-Landmark

Trinucleotide repeats are prevalent among cancer-related genes

(2007) Yael Haberman et al.   TRENDS IN GENETICS