Chromatin accessibility of primary human cancers ties regional mutational processes and signatures with tissues of origin

Replication timing maintains the global epigenetic state in human cells

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Passenger Mutations in More Than 2,500 Cancer Genomes: Overall Molecular Functional Impact and Consequences

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Analyses of non-coding somatic drivers in 2,658 cancer whole genomes

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Patterns of somatic structural variation in human cancer genomes

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A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns

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Chromatin mapping and single-cell immune profiling define the temporal dynamics of ibrutinib response in CLL

(2020) André F. Rendeiro et al.   Nature Communications

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(2020) Jill E. Moore et al.   NATURE

Prostate cancer reactivates developmental epigenomic programs during metastatic progression

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Somatic mutation distributions in cancer genomes vary with three-dimensional chromatin structure

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Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer

(2019) Qian Du et al.   Nature Communications

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An atlas of chromatin accessibility in the adult human brain

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The chromatin accessibility landscape of primary human cancers

(2018) M. Ryan Corces et al.   SCIENCE

Harnessing BET Inhibitor Sensitivity Reveals AMIGO2 as a Melanoma Survival Gene

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The interaction between cytosine methylation and processes of DNA replication and repair shape the mutational landscape of cancer genomes

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

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

(2016) Serena Nik-Zainal et al.   NATURE

Tissue-specific mutation accumulation in human adult stem cells during life

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

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Cell-of-origin chromatin organization shapes the mutational landscape of cancer

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Clock-like mutational processes in human somatic cells

(2015) Ludmil B Alexandrov et al.   NATURE GENETICS

CTCF/cohesin-binding sites are frequently mutated in cancer

(2015) Riku Katainen et al.   NATURE GENETICS

Genome-wide CIITA-binding profile identifies sequence preferences that dictate function versus recruitment

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Epigenetic targeting of activation-induced cytidine deaminase

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Transcription Restores DNA Repair to Heterochromatin, Determining Regional Mutation Rates in Cancer Genomes

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

(2013) Michael S. Lawrence et al.   NATURE

DNA replication timing and higher-order nuclear organization determine single-nucleotide substitution patterns in cancer genomes

(2013) Lin Liu et al.   Nature Communications

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

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

(2012) Yong H Woo et al.   Nature Communications

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Human mutation rate associated with DNA replication timing

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Sequencing newly replicated DNA reveals widespread plasticity in human replication timing

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