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Article
Open AccessAutonomous transposons tune their sequences to ensure somatic suppression
Transposable elements (TEs) are a major constituent of human genes, occupying approximately half of the intronic space. During pre-messenger RNA synthesis, intronic TEs are transcribed along with their host ge...
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Article
Open AccessSelf-patterning of human stem cells into post-implantation lineages
Investigating human development is a substantial scientific challenge due to the technical and ethical limitations of working with embryonic samples. In the face of these difficulties, stem cells have provided...
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Article
Open AccessDynamic antagonism between key repressive pathways maintains the placental epigenome
DNA and Histone 3 Lysine 27 methylation typically function as repressive modifications and operate within distinct genomic compartments. In mammals, the majority of the genome is kept in a DNA methylated state...
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Article
Open AccessHijacking of transcriptional condensates by endogenous retroviruses
Most endogenous retroviruses (ERVs) in mammals are incapable of retrotransposition; therefore, why ERV derepression is associated with lethality during early development has been a mystery. Here, we report tha...
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Article
Smart-RRBS for single-cell methylome and transcriptome analysis
The integration of DNA methylation and transcriptional state within single cells is of broad interest. Several single-cell dual- and multi-omics approaches have been reported that enable further investigation ...
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Article
Epigenetic regulator function through mouse gastrulation
During ontogeny, proliferating cells become restricted in their fate through the combined action of cell-type-specific transcription factors and ubiquitous epigenetic machinery, which recognizes universally av...
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Article
TETs compete with DNMT3 activity in pluripotent cells at thousands of methylated somatic enhancers
Mammalian cells stably maintain high levels of DNA methylation despite expressing both positive (DNMT3A/B) and negative (TET1-3) regulators. Here, we analyzed the independent and combined effects of these regu...
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Article
Open AccessDifferential regulation of OCT4 targets facilitates reacquisition of pluripotency
Ectopic transcription factor expression enables reprogramming of somatic cells to pluripotency, albeit with generally low efficiency. Despite steady progress in the field, the exact molecular mechanisms that c...
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Article
Molecular recording of mammalian embryogenesis
Ontogeny describes the emergence of complex multicellular organisms from single totipotent cells. This field is particularly challenging in mammals, owing to the indeterminate relationship between self-renewal...
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Article
Author Correction: Global delay in nascent strand DNA methylation
Following online publication of this article, the Gene Expression Omnibus records corresponding to accession codes GSM2406773, MN-d6, and GSM2406772, MN-d14, listed in the data availability statement were dele...
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Article
Global delay in nascent strand DNA methylation
Cytosine methylation is widespread among organisms and essential for mammalian development. In line with early postulations of an epigenetic role in gene regulation, symmetric CpG methylation can be mitoticall...
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Article
Genetic determinants and epigenetic effects of pioneer-factor occupancy
Transcription factors (TFs) direct developmental transitions by binding to target DNA sequences, influencing gene expression and establishing complex gene-regultory networks. To systematically determine the mo...
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Article
Epigenetic restriction of extraembryonic lineages mirrors the somatic transition to cancer
Analysis of global remethylation in mouse embryos at several developmental stages identifies an epigenetic landscape that partitions extraembryonic tissues within the embryo and resembles a frequent, global de...
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Article
Molecular features of cellular reprogramming and development
We discuss the control and maintenance of cellular identity during developmental transitions as they have been studied using direct reprogramming to pluripoten...
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Article
DNA methylation dynamics of the human preimplantation embryo
Genome-scale DNA methylation maps over early human embryogenesis and embryonic stem cell derivation provide insights into shared and unique modes of regulation when compared to the mouse model, including relat...
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Article
DNA methylation: roles in mammalian development
DNA methylation is essential for mammalian development and has notable roles in gene silencing, protection against spurious repetitive element activity, genomi...
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Article
Open AccessGel-free multiplexed reduced representation bisulfite sequencing for large-scale DNA methylation profiling
Sequencing-based approaches have led to new insights about DNA methylation. While many different techniques for genome-scale map** of DNA methylation have been employed, throughput has been a key limitation ...
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Article
Mouse ooplasm confers context-specific reprogramming capacity
Alex Meissner and colleagues report base pair–resolution methylation maps from donor fibroblasts and nuclear transfer–reconstructed mouse embryos. They compare methylation profiles to that present during norma...
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Article
A unique regulatory phase of DNA methylation in the early mammalian embryo
DNA methylation is highly dynamic during mammalian embryogenesis. It is broadly accepted that the paternal genome is actively depleted of 5-methylcytosine at fertilization, followed by passive loss that reache...
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Article
Epigenomics and chromatin dynamics
A report of the 'Joint Keystone Symposium on Epigenomics and Chromatin Dynamics', Keystone, Colorado, 17-22 January 2012.
