G4access identifies G-quadruplexes and their associations with open chromatin and imprinting control regions

C Esnault, T Magat, A Zine El Aabidine… - Nature …, 2023 - nature.com
Metazoan promoters are enriched in secondary DNA structure-forming motifs, such as G-
quadruplexes (G4s). Here we describe 'G4access', an approach to isolate and sequence …

The DNA methyltransferase DNMT3C protects male germ cells from transposon activity

J Barau, A Teissandier, N Zamudio, S Roy, V Nalesso… - Science, 2016 - science.org
DNA methylation is prevalent in mammalian genomes and plays a central role in the
epigenetic control of development. The mammalian DNA methylation machinery is thought …

[HTML][HTML] A data-driven approach to preprocessing Illumina 450K methylation array data

R Pidsley, CC Y Wong, M Volta, K Lunnon, J Mill… - BMC genomics, 2013 - Springer
Background As the most stable and experimentally accessible epigenetic mark, DNA
methylation is of great interest to the research community. The landscape of DNA …

A survey of tissue-specific genomic imprinting in mammals

AR Prickett, RJ Oakey - Molecular Genetics and Genomics, 2012 - Springer
In mammals, most somatic cells contain two copies of each autosomal gene, one inherited
from each parent. When a gene is expressed, both parental alleles are usually transcribed …

Next generation sequencing in epigenetics: insights and challenges

E Meaburn, R Schulz - Seminars in cell & developmental biology, 2012 - Elsevier
The epigenetics community was an early adopter of next generation sequencing (NGS).
NGS-based studies have provided detailed and comprehensive views of epigenetic …

[HTML][HTML] An epigenetic switch ensures transposon repression upon dynamic loss of DNA methylation in embryonic stem cells

M Walter, A Teissandier, R Pérez-Palacios, D Bourc'His - Elife, 2016 - elifesciences.org
DNA methylation is extensively remodeled during mammalian gametogenesis and
embryogenesis. Most transposons become hypomethylated, raising the question of their …

[HTML][HTML] Base-resolution analyses of sequence and parent-of-origin dependent DNA methylation in the mouse genome

W Xie, CL Barr, A Kim, F Yue, AY Lee, J Eubanks… - Cell, 2012 - cell.com
Differential methylation of the two parental genomes in placental mammals is essential for
genomic imprinting and embryogenesis. To systematically study this epigenetic process, we …

High-resolution analysis of parent-of-origin allelic expression in the mouse brain

C Gregg, J Zhang, B Weissbourd, S Luo, GP Schroth… - science, 2010 - science.org
Genomic imprinting results in preferential expression of the paternal or maternal allele of
certain genes. We have performed a genome-wide characterization of imprinting in the …

Genetic conflict reflected in tissue-specific maps of genomic imprinting in human and mouse

T Babak, B DeVeale, EK Tsang, Y Zhou, X Li… - Nature …, 2015 - nature.com
Genomic imprinting is an epigenetic process that restricts gene expression to either the
maternally or paternally inherited allele,. Many theories have been proposed to explain its …

[HTML][HTML] Critical evaluation of imprinted gene expression by RNA–Seq: a new perspective

B DeVeale, D van der Kooy, T Babak - PLoS genetics, 2012 - journals.plos.org
In contrast to existing estimates of approximately 200 murine imprinted genes, recent work
based on transcriptome sequencing uncovered parent-of-origin allelic effects at more than …