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 …

TET-mediated active DNA demethylation: mechanism, function and beyond

X Wu, Y Zhang - Nature Reviews Genetics, 2017 - nature.com
In mammals, DNA methylation in the form of 5-methylcytosine (5mC) can be actively
reversed to unmodified cytosine (C) through TET dioxygenase-mediated oxidation of 5mC to …

Enzymatic methyl sequencing detects DNA methylation at single-base resolution from picograms of DNA

R Vaisvila, VKC Ponnaluri, Z Sun… - Genome …, 2021 - genome.cshlp.org
Bisulfite sequencing detects 5mC and 5hmC at single-base resolution. However, bisulfite
treatment damages DNA, which results in fragmentation, DNA loss, and biased sequencing …

Dynamics of DNA hydroxymethylation and methylation during mouse embryonic and germline development

R Yan, X Cheng, C Gu, Y Xu, X Long, J Zhai, F Sun… - Nature Genetics, 2023 - nature.com
Abstract In mammals, DNA 5-hydroxymethylcytosine (5hmC) is involved in methylation
reprogramming during early embryonic development. Yet, to what extent 5hmC participates …

The maternal-to-zygotic transition revisited

NL Vastenhouw, WX Cao, HD Lipshitz - Development, 2019 - journals.biologists.com
The development of animal embryos is initially directed by maternal gene products. Then,
during the maternal-to-zygotic transition (MZT), developmental control is handed to the …

Dynamics of the epigenetic landscape during the maternal-to-zygotic transition

MA Eckersley-Maslin, C Alda-Catalinas… - … Reviews Molecular Cell …, 2018 - nature.com
A remarkable epigenetic remodelling process occurs shortly after fertilization, which restores
totipotency to the zygote. This involves global DNA demethylation, chromatin remodelling …

[HTML][HTML] The technology and biology of single-cell RNA sequencing

AA Kolodziejczyk, JK Kim, V Svensson, JC Marioni… - Molecular cell, 2015 - cell.com
The differences between individual cells can have profound functional consequences, in
both unicellular and multicellular organisms. Recently developed single-cell mRNA …

DeepCpG: accurate prediction of single-cell DNA methylation states using deep learning

C Angermueller, HJ Lee, W Reik, O Stegle - Genome biology, 2017 - Springer
Recent technological advances have enabled DNA methylation to be assayed at single-cell
resolution. However, current protocols are limited by incomplete CpG coverage and hence …

Contribution of semen to early embryo development: fertilization and beyond

M Vallet-Buisan, R Mecca, C Jones… - Human …, 2023 - academic.oup.com
BACKGROUND It has long been thought that the factors affecting embryo and foetal
development were exclusively maternally derived; hence, if issues regarding fertility and …

Single-cell epigenomics: Recording the past and predicting the future

G Kelsey, O Stegle, W Reik - Science, 2017 - science.org
Single-cell multi-omics has recently emerged as a powerful technology by which different
layers of genomic output—and hence cell identity and function—can be recorded …