Passenger hotspot mutations in cancer driven by APOBEC3A and mesoscale genomic features

Characterizing Mutational Signatures in Human Cancer Cell Lines Reveals Episodic APOBEC Mutagenesis

(2019) Mia Petljak et al.   CELL

Substrate sequence selectivity of APOBEC3A implicates intra-DNA interactions

(2018) Tania V. Silvas et al.   Scientific Reports

The Aryl Hydrocarbon Receptor and Tumor Immunity

(2018) Ping Xue et al.   Frontiers in Immunology

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

(2018) Ilias Georgakopoulos-Soares et al.   GENOME RESEARCH

Somatic and Germline Mutation Periodicity Follow the Orientation of the DNA Minor Groove around Nucleosomes

(2018) Oriol Pich et al.   CELL

Recurrent and functional regulatory mutations in breast cancer

(2017) Esther Rheinbay et al.   NATURE

A mutational signature reveals alterations underlying deficient homologous recombination repair in breast cancer

(2017) Paz Polak et al.   NATURE GENETICS

Short inverted repeats contribute to localized mutability in human somatic cells

(2017) Xueqing Zou et al.   NUCLEIC ACIDS RESEARCH

Synergistic role of Cul1 and c-Myc: Prognostic and predictive biomarkers in colorectal cancer

(2017) Weimin Wang et al.   ONCOLOGY REPORTS

Crystal structure of APOBEC3A bound to single-stranded DNA reveals structural basis for cytidine deamination and specificity

(2017) Takahide Kouno et al.   Nature Communications

KLF5 promotes cervical cancer proliferation, migration and invasion in a manner partly dependent on TNFRSF11a expression

(2017) Dong Ma et al.   Scientific Reports

Bladder-cancer-associated mutations in RXRA activate peroxisome proliferator-activated receptors to drive urothelial proliferation

(2017) Angela M Halstead et al.   eLife

Stem-loop structure preference for site-specific RNA editing by APOBEC3A and APOBEC3G

(2017) Shraddha Sharma et al.   PeerJ

Mutational Strand Asymmetries in Cancer Genomes Reveal Mechanisms of DNA Damage and Repair

(2016) Nicholas J. Haradhvala et al.   CELL

The RAS‐related GTPase RHOB confers resistance to EGFR‐tyrosine kinase inhibitors in non‐small‐cell lung cancer via an AKT‐dependent mechanism

(2016) Olivier Calvayrac et al.   EMBO Molecular Medicine

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

(2016) Vladimir B. Seplyarskiy et al.   GENOME RESEARCH

Chromatin Domains: The Unit of Chromosome Organization

(2016) Jesse R. Dixon et al.   MOLECULAR CELL

Nucleotide excision repair is impaired by binding of transcription factors to DNA

(2016) Radhakrishnan Sabarinathan et al.   NATURE

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

(2016) Serena Nik-Zainal et al.   NATURE

Structural basis for targeted DNA cytosine deamination and mutagenesis by APOBEC3A and APOBEC3B

(2016) Ke Shi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The DNA cytosine deaminase APOBEC3H haplotype I likely contributes to breast and lung cancer mutagenesis

(2016) Gabriel J. Starrett et al.   Nature Communications

Structural basis for targeted DNA cytosine deamination and mutagenesis by APOBEC3A and APOBEC3B

(2016) Ke Shi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

APOBEC3A and APOBEC3B Preferentially Deaminate the Lagging Strand Template during DNA Replication

(2016) James I. Hoopes et al.   Cell Reports

Identifying recurrent mutations in cancer reveals widespread lineage diversity and mutational specificity

(2015) Matthew T Chang et al.   NATURE BIOTECHNOLOGY

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

(2015) Kin Chan et al.   NATURE GENETICS

Molecular basis of the attenuated phenotype of human APOBEC3B DNA mutator enzyme

(2015) Vincent Caval et al.   NUCLEIC ACIDS RESEARCH

Discovery and saturation analysis of cancer genes across 21 tumour types

(2014) Michael S. Lawrence et al.   NATURE

How Much of the Variation in the Mutation Rate Along the Human Genome Can Be Explained?

(2014) A. Eyre-Walker et al.   G3-Genes Genomes Genetics

APOBEC3B Upregulation and Genomic Mutation Patterns in Serous Ovarian Carcinoma

(2013) B. Leonard et al.   CANCER RESEARCH

Lessons from the Cancer Genome

(2013) Levi A. Garraway et al.   CELL

Endogenous APOBEC3A DNA Cytosine Deaminase Is Cytoplasmic and Nongenotoxic

(2013) Allison M. Land et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

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

Exome and whole-genome sequencing of esophageal adenocarcinoma identifies recurrent driver events and mutational complexity

(2013) Austin M Dulak et al.   NATURE GENETICS

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

Engineered proteins detect spontaneous DNA breakage in human and bacterial cells

(2013) Chandan Shee et al.   eLife

Mutational Processes Molding the Genomes of 21 Breast Cancers

(2012) Serena Nik-Zainal et al.   CELL

The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity

(2012) Jordi Barretina et al.   NATURE

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

(2011) Sébastien Landry et al.   EMBO REPORTS

Variation in the mutation rate across mammalian genomes

(2011) Alan Hodgkinson et al.   NATURE REVIEWS GENETICS

The Genomic Distribution and Local Context of Coincident SNPs in Human and Chimpanzee

(2010) Alan Hodgkinson et al.   Genome Biology and Evolution

Impact of replication timing on non-CpG and CpG substitution rates in mammalian genomes

(2010) C. L. Chen et al.   GENOME RESEARCH

Innate Immune Signaling Induces High Levels of TC-specific Deaminase Activity in Primary Monocyte-derived Cells through Expression of APOBEC3A Isoforms

(2010) Beth K. Thielen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

APOBEC3 proteins mediate the clearance of foreign DNA from human cells

(2010) Mark D Stenglein et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Defining APOBEC3 Expression Patterns in Human Tissues and Hematopoietic Cell Subsets

(2009) F. A. Koning et al.   JOURNAL OF VIROLOGY

Human mutation rate associated with DNA replication timing

(2009) John A Stamatoyannopoulos et al.   NATURE GENETICS

Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome

(2009) E. Lieberman-Aiden et al.   SCIENCE

Cryptic Variation in the Human Mutation Rate

(2009) Alan Hodgkinson et al.   PLOS BIOLOGY