Genome-wide maps of alkylation damage, repair, and mutagenesis in yeast reveal mechanisms of mutational heterogeneity

Global genome nucleotide excision repair is organized into domains that promote efficient DNA repair in chromatin

(2016) Shirong Yu et al.   GENOME RESEARCH

Mapping nucleosome positions using DNase-seq

(2016) Jianling Zhong et al.   GENOME RESEARCH

Site-specific Acetylation of Histone H3 Decreases Polymerase β Activity on Nucleosome Core Particlesin Vitro

(2016) Yesenia Rodriguez et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Sequencing of DNA Lesions Facilitated by Site-Specific Excision via Base Excision Repair DNA Glycosylases Yielding Ligatable Gaps

(2016) Jan Riedl et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

UV-Induced DNA Damage and Mutagenesis in Chromatin

(2016) Peng Mao et al.   PHOTOCHEMISTRY AND PHOTOBIOLOGY

Chromosomal landscape of UV damage formation and repair at single-nucleotide resolution

(2016) Peng Mao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The role of DNA base excision repair in brain homeostasis and disease

(2015) Mansour Akbari et al.   DNA REPAIR

Facilitation of base excision repair by chromatin remodeling

(2015) John M. Hinz et al.   DNA REPAIR

Genomic approaches to DNA repair and mutagenesis

(2015) John J. Wyrick et al.   DNA REPAIR

Accessing DNA damage in chromatin: Preparing the chromatin landscape for base excision repair

(2015) Yesenia Rodriguez et al.   DNA REPAIR

Genome-wide analysis of human global and transcription-coupled excision repair of UV damage at single-nucleotide resolution

(2015) Jinchuan Hu et al.   GENES & DEVELOPMENT

High-resolution Digital Mapping ofN-Methylpurines in Human Cells Reveals Modulation of Their Induction and Repair by Nearest-neighbor Nucleotides

(2015) Mingyang Li et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

High-Resolution Chromatin Dynamics during a Yeast Stress Response

(2015) Assaf Weiner et al.   MOLECULAR CELL

Genome-wide mapping of embedded ribonucleotides and other noncanonical nucleotides using emRiboSeq and EndoSeq

(2015) James Ding et al.   Nature Protocols

The current state of eukaryotic DNA base damage and repair

(2015) Nicholas C. Bauer et al.   NUCLEIC ACIDS RESEARCH

High resolution mapping of modified DNA nucleobases using excision repair enzymes

(2014) D. Suzi Bryan et al.   GENOME RESEARCH

Break-Induced Replication Is a Source of Mutation Clusters Underlying Kataegis

(2014) Cynthia J. Sakofsky et al.   Cell Reports

Signatures of mutational processes in human cancer

(2013) Ludmil B. Alexandrov et al.   NATURE

Base excision repair and cancer

(2012) Susan S. Wallace et al.   CANCER LETTERS

Chromatin and Transcription in Yeast

(2012) Oliver J. Rando et al.   GENETICS

Clustered Mutations in Yeast and in Human Cancers Can Arise from Damaged Long Single-Strand DNA Regions

(2012) Steven A. Roberts et al.   MOLECULAR CELL

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

(2012) Benjamin Schuster-Böckler et al.   NATURE

A map of nucleosome positions in yeast at base-pair resolution

(2012) Kristin Brogaard et al.   NATURE

Transcription as a source of genome instability

(2012) Nayun Kim et al.   NATURE REVIEWS GENETICS

Transcriptional activation of yeast genes disrupts intragenic nucleosome phasing

(2012) Feng Cui et al.   NUCLEIC ACIDS RESEARCH

Chemical biology of mutagenesis and DNA repair: cellular responses to DNA alkylation

(2009) N. Shrivastav et al.   CARCINOGENESIS

A Method for Genetically Installing Site-Specific Acetylation in Recombinant Histones Defines the Effects of H3 K56 Acetylation

(2009) Heinz Neumann et al.   MOLECULAR CELL

Altering the chromatin landscape for nucleotide excision repair

(2009) Ronita Nag et al.   MUTATION RESEARCH-REVIEWS IN MUTATION RESEARCH

A compiled and systematic reference map of nucleosome positions across the Saccharomyces cerevisiae genome

(2009) Cizhong Jiang et al.   GENOME BIOLOGY

Transcription-coupled DNA repair: two decades of progress and surprises

(2008) Philip C. Hanawalt et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Eukaryotic Y-family polymerases bypass a 3-methyl-2′-deoxyadenosine analog in vitro and methyl methanesulfonate-induced DNA damage in vivo

(2008) Brian S. Plosky et al.   NUCLEIC ACIDS RESEARCH