Enhancer DNA methylation: implications for gene regulation
A Angeloni, O Bogdanovic - Essays in biochemistry, 2019 - portlandpress.com
DNA methylation involves the addition of a methyl group to the fifth carbon of the pyrimidine
cytosine ring (5-methylcytosine, 5mC). 5mC is widespread in vertebrate genomes where it is …
cytosine ring (5-methylcytosine, 5mC). 5mC is widespread in vertebrate genomes where it is …
Ground rules of the pluripotency gene regulatory network
M Li, JCI Belmonte - Nature Reviews Genetics, 2017 - nature.com
Pluripotency is a state that exists transiently in the early embryo and, remarkably, can be
recapitulated in vitro by deriving embryonic stem cells or by reprogramming somatic cells to …
recapitulated in vitro by deriving embryonic stem cells or by reprogramming somatic cells to …
Active DNA demethylation at enhancers during the vertebrate phylotypic period
O Bogdanović, AH Smits, E de la Calle Mustienes… - Nature …, 2016 - nature.com
The vertebrate body plan and organs are shaped during a conserved embryonic phase
called the phylotypic stage. However, the mechanisms that guide the epigenome through …
called the phylotypic stage. However, the mechanisms that guide the epigenome through …
DUX-miR-344-ZMYM2-mediated activation of MERVL LTRs induces a totipotent 2C-like state
Mouse embryonic stem cells (ESCs) sporadically express preimplantation two-cell-stage
(2C) transcripts, including MERVL endogenous retrovirus and Zscan4 cluster genes. Such …
(2C) transcripts, including MERVL endogenous retrovirus and Zscan4 cluster genes. Such …
RNA-dependent chromatin targeting of TET2 for endogenous retrovirus control in pluripotent stem cells
Ten-eleven translocation (TET) proteins play key roles in the regulation of DNA-methylation
status by oxidizing 5-methylcytosine (5mC) to generate 5-hydroxymethylcytosine (5hmC) …
status by oxidizing 5-methylcytosine (5mC) to generate 5-hydroxymethylcytosine (5hmC) …
Argonaute-miRNA complexes silence target mRNAs in the nucleus of mammalian stem cells
AA Sarshad, AH Juan, AIC Muler, DG Anastasakis… - Molecular cell, 2018 - cell.com
In mammals, gene silencing by the RNA-induced silencing complex (RISC) is a well-
understood cytoplasmic posttranscriptional gene regulatory mechanism. Here, we show that …
understood cytoplasmic posttranscriptional gene regulatory mechanism. Here, we show that …
Network plasticity of pluripotency transcription factors in embryonic stem cells
A Filipczyk, C Marr, S Hastreiter, J Feigelman… - Nature cell …, 2015 - nature.com
Transcription factor (TF) networks are thought to regulate embryonic stem cell (ESC)
pluripotency. However, TF expression dynamics and regulatory mechanisms are poorly …
pluripotency. However, TF expression dynamics and regulatory mechanisms are poorly …
Long-range enhancer interactions are prevalent in mouse embryonic stem cells and are reorganized upon pluripotent state transition
Transcriptional enhancers, including super-enhancers (SEs), form physical interactions with
promoters to regulate cell-type-specific gene expression. SEs are characterized by high …
promoters to regulate cell-type-specific gene expression. SEs are characterized by high …
CTCF organizes inter-A compartment interactions through RYBP-dependent phase separation
C Wei, L Jia, X Huang, J Tan, M Wang, J Niu, Y Hou… - Cell Research, 2022 - nature.com
Chromatin is spatially organized into three-dimensional structures at different levels
including A/B compartments, topologically associating domains and loops. The canonical …
including A/B compartments, topologically associating domains and loops. The canonical …
TET enzymes, DNA demethylation and pluripotency
SE Ross, O Bogdanovic - Biochemical Society Transactions, 2019 - portlandpress.com
Ten-eleven translocation (TET) methylcytosine dioxygenases (TET1, TET2, TET3) actively
cause demethylation of 5-methylcytosine (5mC) and produce and safeguard …
cause demethylation of 5-methylcytosine (5mC) and produce and safeguard …