A population-epigenetic model to infer site-specific methylation rates from double-stranded DNA methylation patterns

DP Genereux, BE Miner… - Proceedings of the …, 2005 - National Acad Sciences
Cytosine methylation is an epigenetic mechanism in eukaryotes that is often associated with
stable transcriptional silencing, such as in X-chromosome inactivation and genomic …

Dynamics, stability and inheritance of somatic DNA methylation imprints

LB Sontag, MC Lorincz, EG Luebeck - Journal of theoretical biology, 2006 - Elsevier
Recent research highlights the role of CpG methylation in genomic imprinting, histone and
chromatin modification, transcriptional regulation, and 'gene silencing'in cancer …

Epigenetic polymorphism and the stochastic formation of differentially methylated regions in normal and cancerous tissues

G Landan, NM Cohen, Z Mukamel, A Bar… - Nature …, 2012 - nature.com
DNA methylation has been comprehensively profiled in normal and cancer cells, but the
dynamics that form, maintain and reprogram differentially methylated regions remain …

Global delay in nascent strand DNA methylation

J Charlton, TL Downing, ZD Smith, H Gu… - Nature structural & …, 2018 - nature.com
Cytosine methylation is widespread among organisms and essential for mammalian
development. In line with early postulations of an epigenetic role in gene regulation …

Dynamics and context-dependent roles of DNA methylation

C Ambrosi, M Manzo, T Baubec - Journal of molecular biology, 2017 - Elsevier
DNA methylation is one of the most extensively studied epigenetic marks. It is involved in
transcriptional gene silencing and plays important roles during mammalian development. Its …

Position-dependent correlations between DNA methylation and the evolutionary rates of mammalian coding exons

TJ Chuang, FC Chen, YZ Chen - Proceedings of the …, 2012 - National Acad Sciences
DNA cytosine methylation is a central epigenetic marker that is usually mutagenic and may
increase the level of sequence divergence. However, methylated genes have been reported …

[HTML][HTML] Tissue-independent and tissue-specific patterns of DNA methylation alteration in cancer

Y Chen, CE Breeze, S Zhen, S Beck… - Epigenetics & …, 2016 - Springer
Background There is growing evidence that DNA methylation alterations contribute to
carcinogenesis. While cancer tissue exhibits widespread DNA methylation changes, the …

[HTML][HTML] Passive and active DNA methylation and the interplay with genetic variation in gene regulation

M Gutierrez-Arcelus, T Lappalainen, SB Montgomery… - elife, 2013 - elifesciences.org
DNA methylation is an essential epigenetic mark whose role in gene regulation and its
dependency on genomic sequence and environment are not fully understood. In this study …

Methods in DNA methylation profiling

T Zuo, B Tycko, TM Liu, HJL Lin, THM Huang - Epigenomics, 2009 - Taylor & Francis
Metastable and somatically heritable patterns of DNA methylation provide an important level
of genomic regulation. In this article, we review methods for analyzing these genome-wide …

Modeling DNA methylation dynamics with approaches from phylogenetics

JA Capra, D Kostka - Bioinformatics, 2014 - academic.oup.com
Abstract Motivation: Methylation of CpG dinucleotides is a prevalent epigenetic modification
that is required for proper development in vertebrates. Genome-wide DNA methylation …