Peter J. Rugg‐Gunn
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View article: Poising and connectivity of emergent human developmental enhancers in the transition from naive to primed pluripotency
Poising and connectivity of emergent human developmental enhancers in the transition from naive to primed pluripotency Open
In primed human pluripotent stem cells (hPSCs) resembling post-implantation epiblast, numerous lineage-specific enhancers assume the poised chromatin state, co-marked by H3K4me1 and Polycomb-associated H3K27me3 histone modifications. In co…
View article: Comprehensive Mapping of Functional Enhancers in Chinese Hamster Ovary Cells
Comprehensive Mapping of Functional Enhancers in Chinese Hamster Ovary Cells Open
Chinese hamster ovary (CHO) cells are the leading mammalian system for recombinant therapeutic protein production. However, optimizing transgene expression remains challenging due to the limited understanding of the regulatory mechanisms c…
View article: Combinatorial profiling of multiple histone modifications and transcriptome in single cells using scMTR-seq
Combinatorial profiling of multiple histone modifications and transcriptome in single cells using scMTR-seq Open
Profiling combinations of histone modifications identifies gene regulatory elements in different states and discovers features controlling transcriptional and epigenetic programs. However, efforts to map chromatin states in complex, hetero…
View article: TrAEL-seq captures DNA replication dynamics in mammalian cells
TrAEL-seq captures DNA replication dynamics in mammalian cells Open
Precise DNA replication is critical to the maintenance of genome stability, and the DNA replication machinery is a focal point of many current and upcoming chemotherapeutics. TrAEL-seq is a robust method for profiling DNA replication genom…
View article: O-079 In vitro human Implantation modelling reveals the role of lysophosphatidic acid and Rho-ROCK pathway in driving cell-in-cell mechanisms during the initial embryo-endometrial interactions during implantation
O-079 In vitro human Implantation modelling reveals the role of lysophosphatidic acid and Rho-ROCK pathway in driving cell-in-cell mechanisms during the initial embryo-endometrial interactions during implantation Open
Study question To decipher the mechanisms that control cell-in-cell (CIC) interactions between trophoblast and endometrial cells and contribute to the clearance of epithelial lining during human implantation. Summary answer CIC facilitates…
View article: Stem cell-based embryo models: The 2021 ISSCR stem cell guidelines revisited
Stem cell-based embryo models: The 2021 ISSCR stem cell guidelines revisited Open
View article: Identifying enabling strategies for effective public dialogue in human embryo research
Identifying enabling strategies for effective public dialogue in human embryo research Open
View article: Initiation and maintenance of the pluripotent epiblast in pre-implantation human development is independent of NODAL signaling
Initiation and maintenance of the pluripotent epiblast in pre-implantation human development is independent of NODAL signaling Open
The human blastocyst contains the pluripotent epiblast from which human embryonic stem cells (hESCs) can be derived. ACTIVIN/NODAL signaling maintains expression of the transcription factor NANOG and in vitro propagation of hESCs. It is un…
View article: Epigenetic regulation of early human embryo development
Epigenetic regulation of early human embryo development Open
Studies of mammalian development have advanced our understanding of the genetic, epigenetic, and cellular processes that orchestrate embryogenesis and have uncovered new insights into the unique aspects of human embryogenesis. Recent studi…
View article: Dbx2, an Aging-Related Homeobox Gene, Inhibits the Proliferation of Adult Neural Progenitors
Dbx2, an Aging-Related Homeobox Gene, Inhibits the Proliferation of Adult Neural Progenitors Open
View article: Technical challenges of studying early human development
Technical challenges of studying early human development Open
Recent years have seen exciting progress across human embryo research, including new methods for culturing embryos, transcriptional profiling of embryogenesis and gastrulation, mapping lineage trajectories, and experimenting on stem cell-b…
View article: Species-specific regulation of<i>XIST</i>by the<i>JPX/FTX</i>orthologs
Species-specific regulation of<i>XIST</i>by the<i>JPX/FTX</i>orthologs Open
X chromosome inactivation (XCI) is an essential process, yet it initiates with remarkable diversity in various mammalian species. XIST, the main trigger of XCI, is controlled in the mouse by an interplay of lncRNA genes (LRGs), some of whi…
View article: <i>Dbx2</i>, an aging-related homeobox gene, inhibits the proliferation of adult neural progenitors
<i>Dbx2</i>, an aging-related homeobox gene, inhibits the proliferation of adult neural progenitors Open
The subventricular zone (SVZ) of the adult mouse brain contains quiescent neural stem cells, which can be activated (aNSCs) to generate transit amplifying progenitors (TAPs), neuroblasts (NBs) and newborn neurons. Neurogenesis declines dur…
View article: <i>NANOGP1</i> , a tandem duplicate of <i>NANOG</i> , exhibits partial functional conservation in human naïve pluripotent stem cells
<i>NANOGP1</i> , a tandem duplicate of <i>NANOG</i> , exhibits partial functional conservation in human naïve pluripotent stem cells Open
Gene duplication events can drive evolution by providing genetic material for new gene functions, and they create opportunities for diverse developmental strategies to emerge between species. To study the contribution of duplicated genes t…
View article: Comparative Principles of DNA Methylation Reprogramming during Human and Mouse In Vitro Primordial Germ Cell Specification
Comparative Principles of DNA Methylation Reprogramming during Human and Mouse In Vitro Primordial Germ Cell Specification Open
(Developmental Cell 39, 104–115, October 10, 2016) In the originally published version of this article, the authors included small RNA-seq data from mPGCLCs to assess the expression of small RNAs. The authors have now noted that at some po…
View article: Decision letter: T-REX17 is a transiently expressed non-coding RNA essential for human endoderm formation
Decision letter: T-REX17 is a transiently expressed non-coding RNA essential for human endoderm formation Open
View article: <i>NANOGP1</i>, a tandem duplicate of <i>NANOG</i>, exhibits partial functional conservation in human naïve pluripotent stem cells
<i>NANOGP1</i>, a tandem duplicate of <i>NANOG</i>, exhibits partial functional conservation in human naïve pluripotent stem cells Open
Gene duplication events are important drivers of evolution by providing genetic material for new gene functions. They also create opportunities for diverse developmental strategies to emerge between species. To study the contribution of du…
View article: Satellite repeat transcripts modulate heterochromatin condensates and safeguard chromosome stability in mouse embryonic stem cells
Satellite repeat transcripts modulate heterochromatin condensates and safeguard chromosome stability in mouse embryonic stem cells Open
View article: Integrated multi-omics reveal polycomb repressive complex 2 restricts human trophoblast induction
Integrated multi-omics reveal polycomb repressive complex 2 restricts human trophoblast induction Open
View article: Amniogenesis occurs in two independent waves in primates
Amniogenesis occurs in two independent waves in primates Open
In primates, the amnion emerges through cavitation of the epiblast during implantation, whereas in other species it does so later at gastrulation by the folding of the ectoderm. How the mechanisms of amniogenesis diversified during evoluti…
View article: Genome-wide screening identifies Polycomb repressive complex 1.3 as an essential regulator of human naïve pluripotent cell reprogramming
Genome-wide screening identifies Polycomb repressive complex 1.3 as an essential regulator of human naïve pluripotent cell reprogramming Open
Uncovering the mechanisms that establish naïve pluripotency in humans is crucial for the future applications of pluripotent stem cells including the production of human blastoids. However, the regulatory pathways that control the establish…
View article: TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells
TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells Open
The signalling pathways that maintain primed human pluripotent stem cells (hPSCs) have been well characterised, revealing a critical role for TGFβ/Activin/Nodal signalling. In contrast, the signalling requirements of naïve human pluripoten…
View article: Author response: TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells
Author response: TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells Open
Article Figures and data Abstract Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract The signalling pathways that maintain prim…
View article: TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells
TGFβ signalling is required to maintain pluripotency of human naïve pluripotent stem cells Open
The signalling pathways that maintain primed human pluripotent stem cells (hPSCs) have been well characterised, revealing a critical role for TGFβ/Activin/Nodal signalling. In contrast, the signalling requirements of naïve human pluripoten…
View article: Widespread reorganisation of pluripotent factor binding and gene regulatory interactions between human pluripotent states
Widespread reorganisation of pluripotent factor binding and gene regulatory interactions between human pluripotent states Open
View article: Genome-wide analysis of DNA replication and DNA double-strand breaks using TrAEL-seq
Genome-wide analysis of DNA replication and DNA double-strand breaks using TrAEL-seq Open
Faithful replication of the entire genome requires replication forks to copy large contiguous tracts of DNA, and sites of persistent replication fork stalling present a major threat to genome stability. Understanding the distribution of si…
View article: Locus-specific induction of gene expression from heterochromatin loci during cellular senescence
Locus-specific induction of gene expression from heterochromatin loci during cellular senescence Open
Cellular senescence is a fate-determined state, accompanied by reorganization of heterochromatin. While lineage-appropriate genes can be temporarily repressed through facultative heterochromatin, stable silencing of lineage-inappropriate g…
View article: Naive Pluripotent Stem Cells Exhibit Phenotypic Variability that Is Driven by Genetic Variation
Naive Pluripotent Stem Cells Exhibit Phenotypic Variability that Is Driven by Genetic Variation Open
View article: Genome-wide analysis of DNA replication and DNA double strand breaks by TrAEL-seq
Genome-wide analysis of DNA replication and DNA double strand breaks by TrAEL-seq Open
Understanding the distribution of sites at which replication forks stall, and the ensuing fork processing events, requires genome-wide methods sensitive to both changes in replication fork structure and the formation of recombinogenic DNA …
View article: Satellite repeat transcripts modulate heterochromatin condensates and safeguard chromosome stability in mouse embryonic stem cells
Satellite repeat transcripts modulate heterochromatin condensates and safeguard chromosome stability in mouse embryonic stem cells Open
Summary Heterochromatin maintains genome integrity and function, and is organised into distinct nuclear domains. Some of these domains are proposed to form by phase separation through the accumulation of HP1α. Mammalian heterochromatin con…