DNA methylation in mammalian development and disease

ZD Smith, S Hetzel, A Meissner - Nature Reviews Genetics, 2024 - nature.com
The DNA methylation field has matured from a phase of discovery and genomic
characterization to one seeking deeper functional understanding of how this modification …

Revealing the vectors of cellular identity with single-cell genomics

A Wagner, A Regev, N Yosef - Nature biotechnology, 2016 - nature.com
Single-cell genomics has now made it possible to create a comprehensive atlas of human
cells. At the same time, it has reopened definitions of a cell's identity and of the ways in …

[HTML][HTML] Aging clocks based on accumulating stochastic variation

DH Meyer, B Schumacher - Nature Aging, 2024 - nature.com
Aging clocks have provided one of the most important recent breakthroughs in the biology of
aging, and may provide indicators for the effectiveness of interventions in the aging process …

Enhancer–promoter interactions and transcription are largely maintained upon acute loss of CTCF, cohesin, WAPL or YY1

THS Hsieh, C Cattoglio, E Slobodyanyuk, AS Hansen… - Nature …, 2022 - nature.com
It remains unclear why acute depletion of CTCF (CCCTC-binding factor) and cohesin only
marginally affects expression of most genes despite substantially perturbing three …

Epigenetic encoding, heritability and plasticity of glioma transcriptional cell states

R Chaligne, F Gaiti, D Silverbush, JS Schiffman… - Nature …, 2021 - nature.com
Single-cell RNA sequencing has revealed extensive transcriptional cell state diversity in
cancer, often observed independently of genetic heterogeneity, raising the central question …

Multiomic analysis of malignant pleural mesothelioma identifies molecular axes and specialized tumor profiles driving intertumor heterogeneity

L Mangiante, N Alcala, A Sexton-Oates, A Di Genova… - Nature Genetics, 2023 - nature.com
Malignant pleural mesothelioma (MPM) is an aggressive cancer with rising incidence and
challenging clinical management. Through a large series of whole-genome sequencing …

DNA methylation loss promotes immune evasion of tumours with high mutation and copy number load

H Jung, HS Kim, JY Kim, JM Sun, JS Ahn… - Nature …, 2019 - nature.com
Mitotic cell division increases tumour mutation burden and copy number load, predictive
markers of the clinical benefit of immunotherapy. Cell division correlates also with genomic …

Function and information content of DNA methylation

D Schübeler - Nature, 2015 - nature.com
Cytosine methylation is a DNA modification generally associated with transcriptional
silencing. Factors that regulate methylation have been linked to human disease, yet how …

DNA methylation: an epigenetic mark of cellular memory

M Kim, J Costello - Experimental & molecular medicine, 2017 - nature.com
DNA methylation is a stable epigenetic mark that can be inherited through multiple cell
divisions. During development and cell differentiation, DNA methylation is dynamic, but …

DNA methylation loss in late-replicating domains is linked to mitotic cell division

W Zhou, HQ Dinh, Z Ramjan, DJ Weisenberger… - Nature …, 2018 - nature.com
DNA methylation loss occurs frequently in cancer genomes, primarily within lamina-
associated, late-replicating regions termed partially methylated domains (PMDs). We …