Human monocyte-to-macrophage differentiation involves highly localized gain and loss of DNA methylation at transcription factor binding sites

KF Dekkers, AE Neele, JW Jukema, BT Heijmans… - Epigenetics & …, 2019 - Springer
… where DNA methylation associates with cell identity. Here we show that DNA methylation
-to-macrophage differentiation occur at transcription factor binding sites, and, in contrast to …

Methylation QTLs are associated with coordinated changes in transcription factor binding, histone modifications, and gene expression levels

NE Banovich, X Lan, G McVicker, B Van de Geijn… - PLoS …, 2014 - journals.plos.org
transcription factor binding as well as transcription factor abundance are associated with
changes in DNA methylation near transcription factor … the regulation of DNA methylation in the …

Detecting and interpreting DNA methylation marks

R Ren, JR Horton, X Zhang, RM Blumenthal… - Current opinion in …, 2018 - Elsevier
… regulation of gene expression by methylation’ [30]. Indeed, the recognition of some
sequence-specific transcription factors is blocked by cytosine methylation only within the context of a …

Potential role of DNA methylation as a facilitator of target search processes for transcription factors through interplay with methyl-CpG-binding proteins

CA Kemme, R Marquez, RH Luu… - Nucleic acids …, 2017 - academic.oup.com
… that sequester transcription factors. … transcription factor Egr-1 with its targets. In this study,
using a stopped-flow fluorescence method, we examined the kinetic impact of DNA methylation

DNA methylation inhibits transcription indirectly via a methyl-CpG binding protein

J Boyes, A Bird - Cell, 1991 - cell.com
… with the binding of transcription factors, we would have expected some inhibition to … of DNA
methylation on transcription of these three promoters. In the case of PCMVjun, transcription

CpG methylation recruits sequence specific transcription factors essential for tissue specific gene expression

R Chatterjee, C Vinson - Biochimica et Biophysica Acta (BBA)-Gene …, 2012 - Elsevier
… present understanding of DNA methylation in normal cells … , although other cytosine
methylation is observed in the … DNA methylation, the genomic distribution of CG methylation, and …

DNA methylation: roles in mammalian development

ZD Smith, A Meissner - Nature Reviews Genetics, 2013 - nature.com
… locus induced appreciable local demethylation, confirming the dominance of transcription
factor binding over DNA methylation in this context 12 . Short, cis-acting sequences are often …

Impacts of pretranscriptional DNA methylation, transcriptional transcription factor, and posttranscriptional microRNA regulations on protein evolutionary rate

TJ Chuang, TW Chiang - Genome biology and evolution, 2014 - academic.oup.com
… In this way, we show that the levels of DNA methylation of … factors are controlled. Interestingly,
protein evolutionary rates are positively correlated with the level of promoter methylation, …

Human telomerase reverse transcriptase regulation by DNA methylation, transcription factor binding and alternative splicing

BA Avin, CB Umbricht… - … journal of oncology, 2016 - spandidos-publications.com
transcribed genes, since methylated DNA is associated with gene silencing through both
interference of transcription factor … Importantly, aberrant DNA methylation is a hallmark of …

SNPs in sites for DNA methylation, transcription factor binding, and miRNA targets leading to allele-specific gene expression and contributing to complex disease risk …

M Vohra, AR Sharma, N Prabhu B, PS Rai - Public Health Genomics, 2021 - karger.com
… For SNPs interacting with DNA methylation, we identified 533 and 9,862 entries from … for
SNPs interacting with DNA methylation, and 11 articles for SNPs in miRNA binding sites (Fig. 2). …