ERα-associated translocations underlie oncogene amplifications in breast cancer

Chromothripsis as an on-target consequence of CRISPR–Cas9 genome editing

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Whole-genome sequencing of phenotypically distinct inflammatory breast cancers reveals similar genomic alterations to non-inflammatory breast cancers

(2021) Xiaotong Li et al.   Genome Medicine

Comprehensive identification of transposable element insertions using multiple sequencing technologies

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Chromothripsis followed by circular recombination drives oncogene amplification in human cancer

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Whole-genome analysis of Nigerian patients with breast cancer reveals ethnic-driven somatic evolution and distinct genomic subtypes

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Pan-cancer analysis of whole genomes

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Comprehensive analysis of chromothripsis in 2,658 human cancers using whole-genome sequencing

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Mechanisms generating cancer genome complexity from a single cell division error

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Expanded encyclopaedias of DNA elements in the human and mouse genomes

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Distinct Classes of Complex Structural Variation Uncovered across Thousands of Cancer Genome Graphs

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Chromothripsis drives the evolution of gene amplification in cancer

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Chromosome segregation errors generate a diverse spectrum of simple and complex genomic rearrangements

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Tracing Oncogene Rearrangements in the Mutational History of Lung Adenocarcinoma

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SigProfilerMatrixGenerator: a tool for visualizing and exploring patterns of small mutational events

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Pan-cancer whole-genome analyses of metastatic solid tumours

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Mutational mechanisms of amplifications revealed by analysis of clustered rearrangements in breast cancers

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Phosphatidylinositol 3-kinase δ blockade increases genomic instability in B cells

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Extrachromosomal oncogene amplification drives tumour evolution and genetic heterogeneity

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

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A whole-genome sequence and transcriptome perspective on HER2-positive breast cancers

(2016) Anthony Ferrari et al.   Nature Communications

Co-transcriptional R-loops are the main cause of estrogen-induced DNA damage

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Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments

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Integrative analysis of 111 reference human epigenomes

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Chromothripsis from DNA damage in micronuclei

(2015) Cheng-Zhong Zhang et al.   NATURE

The Molecular Signatures Database Hallmark Gene Set Collection

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The Architecture and Evolution of Cancer Neochromosomes

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Quantitative multigene FISH on breast carcinomas identifies der(1;16)(q10;p10) as an early event in luminal A tumors

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Constitutional and somatic rearrangement of chromosome 21 in acute lymphoblastic leukaemia

(2014) Yilong Li et al.   NATURE

Factors Related to Age at Natural Menopause: Longitudinal Analyses From SWAN

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Amplification of Distant Estrogen Response Elements Deregulates Target Genes Associated with Tamoxifen Resistance in Breast Cancer

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Identification of Early Replicating Fragile Sites that Contribute to Genome Instability

(2013) Jacqueline H. Barlow et al.   CELL

Punctuated Evolution of Prostate Cancer Genomes

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Tamoxifen and Risk of Contralateral Breast Cancer for BRCA1 and BRCA2 Mutation Carriers

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Pan-cancer patterns of somatic copy number alteration

(2013) Travis I Zack et al.   NATURE GENETICS

Revisiting Global Gene Expression Analysis

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Dicentric chromosomes: unique models to study centromere function and inactivation

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Phosphatidylinositol-3-kinase pathway mutations are common in breast columnar cell lesions

(2012) Megan L Troxell et al.   MODERN PATHOLOGY

The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups

(2012) Christina Curtis et al.   NATURE

Estrogen receptor prevents p53-dependent apoptosis in breast cancer

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Massive Genomic Rearrangement Acquired in a Single Catastrophic Event during Cancer Development

(2011) Philip J. Stephens et al.   CELL

Genome-wide Translocation Sequencing Reveals Mechanisms of Chromosome Breaks and Rearrangements in B Cells

(2011) Roberto Chiarle et al.   CELL

The patterns and dynamics of genomic instability in metastatic pancreatic cancer

(2010) Peter J. Campbell et al.   NATURE

Androgen-induced TOP2B-mediated double-strand breaks and prostate cancer gene rearrangements

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Nuclear Receptor-Induced Chromosomal Proximity and DNA Breaks Underlie Specific Translocations in Cancer

(2009) Chunru Lin et al.   CELL

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

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Model-based Analysis of ChIP-Seq (MACS)

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