APOBEC-induced mutations in human cancers are strongly enriched on the lagging DNA strand during replication

Differential DNA mismatch repair underlies mutation rate variation across the human genome

(2015) Fran Supek et al.   NATURE

Lagging-strand replication shapes the mutational landscape of the genome

(2015) Martin A. M. Reijns et al.   NATURE

Genome-wide patterns and properties of de novo mutations in humans

(2015) Laurent C Francioli et al.   NATURE GENETICS

An APOBEC3A hypermutation signature is distinguishable from the signature of background mutagenesis by APOBEC3B in human cancers

(2015) Kin Chan et al.   NATURE GENETICS

Clock-like mutational processes in human somatic cells

(2015) Ludmil B Alexandrov et al.   NATURE GENETICS

APOBEC3Bexpression in breast cancer reflects cellular proliferation, while a deletion polymorphism is associated with immune activation

(2015) David W. Cescon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Clonal status of actionable driver events and the timing of mutational processes in cancer evolution

(2015) Nicholas McGranahan et al.   Science Translational Medicine

APOBEC3 genes: retroviral restriction factors to cancer drivers

(2015) Stephen Henderson et al.   TRENDS IN MOLECULAR MEDICINE

Clustered and genome-wide transient mutagenesis in human cancers: Hypermutation without permanent mutators or loss of fitness

(2014) Steven A. Roberts et al.   BIOESSAYS

Exonuclease mutations in DNA polymerase epsilon reveal replication strand specific mutation patterns and human origins of replication

(2014) Eve Shinbrot et al.   GENOME RESEARCH

Topologically associating domains are stable units of replication-timing regulation

(2014) Benjamin D. Pope et al.   NATURE

Tug-of-war between driver and passenger mutations in cancer and other adaptive processes

(2014) Christopher D. McFarland et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spatial and temporal diversity in genomic instability processes defines lung cancer evolution

(2014) E. C. de Bruin et al.   SCIENCE

A prevalent cancer susceptibility APOBEC3A hybrid allele bearing APOBEC3B 3′UTR enhances chromosomal DNA damage

(2014) Vincent Caval et al.   Nature Communications

Mutational Context and Diverse Clonal Development in Early and Late Bladder Cancer

(2014) Iver Nordentoft et al.   Cell Reports

APOBEC-Mediated Cytosine Deamination Links PIK3CA Helical Domain Mutations to Human Papillomavirus-Driven Tumor Development

(2014) Stephen Henderson et al.   Cell Reports

Active RNAP pre-initiation sites are highly mutated by cytidine deaminases in yeast, with AID targeting small RNA genes

(2014) Benjamin JM Taylor et al.   eLife

Repair of naturally occurring mismatches can induce mutations in flanking DNA

(2014) Jia Chen et al.   eLife

APOBEC3B is an enzymatic source of mutation in breast cancer

(2013) Michael B. Burns et al.   NATURE

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

(2013) Michael S. Lawrence et al.   NATURE

Signatures of mutational processes in human cancer

(2013) Ludmil B. Alexandrov et al.   NATURE

Evidence for APOBEC3B mutagenesis in multiple human cancers

(2013) Michael B Burns et al.   NATURE GENETICS

An APOBEC cytidine deaminase mutagenesis pattern is widespread in human cancers

(2013) Steven A Roberts et al.   NATURE GENETICS

Deciphering Signatures of Mutational Processes Operative in Human Cancer

(2013) Ludmil B. Alexandrov et al.   Cell Reports

DNA deaminases induce break-associated mutation showers with implication of APOBEC3B and 3A in breast cancer kataegis

(2013) Benjamin JM Taylor et al.   eLife

Differential Relationship of DNA Replication Timing to Different Forms of Human Mutation and Variation

(2012) Amnon Koren et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Mutational Processes Molding the Genomes of 21 Breast Cancers

(2012) Serena Nik-Zainal et al.   CELL

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

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

AID/APOBEC deaminases disfavor modified cytosines implicated in DNA demethylation

(2012) Christopher S Nabel et al.   Nature Chemical Biology

DNA replication timing and selection shape the landscape of nucleotide variation in cancer genomes

(2012) Yong H Woo et al.   Nature Communications

Replication Fork Polarity Gradients Revealed by Megabase-Sized U-Shaped Replication Timing Domains in Human Cell Lines

(2012) Antoine Baker et al.   PLoS Computational Biology

APOBEC3A can activate the DNA damage response and cause cell-cycle arrest

(2011) Sébastien Landry et al.   EMBO REPORTS

Replication-Associated Mutational Asymmetry in the Human Genome

(2011) Chun-Long Chen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Functions and regulation of the APOBEC family of proteins

(2011) Harold C. Smith et al.   SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY

Evolutionarily conserved replication timing profiles predict long-range chromatin interactions and distinguish closely related cell types

(2010) T. Ryba et al.   GENOME RESEARCH

Reconciling stochastic origin firing with defined replication timing

(2009) Nicholas Rhind et al.   CHROMOSOME RESEARCH

Human mutation rate associated with DNA replication timing

(2009) John A Stamatoyannopoulos et al.   NATURE GENETICS

Global organization of replication time zones of the mouse genome

(2008) S. Farkash-Amar et al.   GENOME RESEARCH

Genome-scale DNA methylation maps of pluripotent and differentiated cells

(2008) Alexander Meissner et al.   NATURE

Hypermutation by intersegmental transfer of APOBEC3G cytidine deaminase

(2008) Roni Nowarski et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY