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Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [ChIP-seq]

ABSTRACT: Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [ChIP-seq]

PROVIDER: PRJNA508492 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8282840_1.fastq.gz	Fastqsanger.gz
	SRR8282840_2.fastq.gz	Fastqsanger.gz
	SRR8282839_1.fastq.gz	Fastqsanger.gz
	SRR8282839_2.fastq.gz	Fastqsanger.gz

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Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [microarray]

Project description:Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [microarray]

| PRJNA508493 | ENA

Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [microarray]

Project description:Estrogen related receptor beta (Esrrb) is an orphan nuclear receptor that is required for self-renewal and pluripotency in mouse embryonic stem (ES) cells. However, in the early post-implantation mouse embryo, Esrrb is specifically expressed in the extraembryonic ectoderm (ExE) and plays a crucial role in trophoblast development. In this study, to better understand the function of Esrrb in trophoblast lineage cells, we performed microarray analysis of Esrrb-null mutant versus wild-type mouse embryos. To further characterize the regulatory targets of Esrrb, we treated trophoblast stem (TS) cells with either Esrrb inhibitor DES or vehicle and compared their global gene expression profile via RNA-seq analysis. In addition, to ask whether these target genes are directly regulated by Esrrb, we performed Chromatin immunoprecipitation-sequencing (ChIP-seq) analysis of TS cells using anti-Esrrb antibody.

2019-07-15 | GSE123360 | GEO

Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [RNA-seq]

Project description:Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [RNA-seq]

| PRJNA508494 | ENA

Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [RNA-seq]

2019-07-15 | GSE123362 | GEO

Esrrb function in the extraembryonic ectoderm is required for proper primordial germ cell specification [ChIP-seq]

2019-07-15 | GSE123361 | GEO

Esrrb function is required for proper primordial germ cell development in presomite stage mouse embryos

Project description:Esrrb function is required for proper primordial germ cell development in presomite stage mouse embryos

| PRJNA508491 | ENA

Temporal effects of BMP4 on mouse embryonic and extraembryonic development

Project description:The developing placenta, originated in the mouse through the extra-embryonic ectoderm (ExE), is essential for mammalian embryonic development. Yet, unbiased characterization of ExE differentiation dynamics and interaction with the embryo proper remains incomplete. Here, we develop a temporal single-cell model of mouse gastrulation that maps continuous and parallel differentiation in embryonic and extraembryonic lineages. This is matched with a 3-way perturbation approach to target signaling from the embryo proper, the ExE alone, or both. We show that ExE specification involves early spatial and transcriptional bifurcation of uncommitted ectoplacental cone cells (EPCs) and chorion progenitors. Early BMP4 signaling from chorion progenitors is required for proper differentiation of uncommitted EPCs and later for their specification towards trophoblast giant cells. We also find bi-phasic regulation by BMP4 in the embryo. The early ExE-originating BMP4 signal is necessary for proper endo-mesoderm bifurcation, allantois, and primordial germ cells (PGCs) specification. However, commencing at E7.5, embryonic-derived BMP4 source restricts PGC pool size by favoring differentiation of their extraembryonic mesoderm precursors towards an allantois fate. ExE and embryonic tissues are therefore entangled in time, space, and signaling axes, highlighting the importance of their integrated understanding and modeling in vivo and in vitro.

2024-05-21 | GSE267870 | GEO

Fgf and Esrrb integrate epigenetic and transcriptional networks that regulate self-renewal of Trophoblast Stem Cells

Project description:Derivation and maintenance of TS cells depends on the presence of Fgf signalling. Numerous gene knock-out experiments identified the mitogen activated kinase Mek/Erk branch of the Fgf signalling pathway as predominantly active in both TS cells and extraembryonic ectoderm. Therefore, we tested changes in expression of the key TS cell transcription factors (TFs) upon Mek/Erk inhibition using the Mek inhibitor PD0325901 (“PD03”). To obtain an unbiased genome-wide coverage of the immediate-early response genes of Mek inhibition in TS cells, we performed RNA-seq analysis after 3h and 24h of PD03 treatment. Notably, of the known TS cell TFs, this analysis confirmed Esrrb as the earliest, most rapidly silenced gene upon PD03 treatment. In order to gain first insights into which genes may be primary targets of Esrrb, we treated TS cells with the synthetic nonsteroidal estrogen diethylstilbestrol (DES), an estrogen-related receptor (Err) antagonist and also performed RNA-seq upon short (24h) and prolonged (4d) DES treatment. Finally, to obtain a comprehensive global overview of the binding sites of Esrrb in TS cells, and of its interaction with Lsd1 and Nr0b1 (Dax1), we performed chromatin immunoprecipitation (ChIP)-seq experiments on these factors.

2015-08-18 | E-MTAB-3565 | biostudies-arrayexpress

Protein Kinase C Mediated Extraembryonic Endoderm Differentiation of Human Embryonic Stem Cells

Project description:Unlike mouse embryonic stem (ES) cells, which are closely related to the inner cell mass, human ES cells appear to be more closely related to the later primitive ectoderm. For example, human ES cells and primitive ectoderm share a common epithelial morphology, growth factor requirements, and the potential to differentiate to all three embryonic germ layers. However, it has previously been shown that human ES cells can also differentiate to cells expressing markers of trophoblast, an extraembryonic lineage formed before the formation of primitive ectoderm. Here we show that phorbol ester 12-O-Tetradecanoylphorbol 13-acetate (TPA) causes human ES cells to undergo an epithelial mesenchymal transition and to differentiate into cells expressing markers of parietal endoderm, another extraembryonic lineage. We further confirmed that this differentiation is through the activation of PKC pathway and demonstrated that a particular PKC subtype, PKC-delta, is most responsible for this transition. This is a time course design. It includes 16 samples.

2012-05-31 | E-GEOD-33180 | biostudies-arrayexpress

Identification of transcriptome of mouse non-neural ectoderm during nueral tube closure and gene enrichment compared to remaining neural tube tissue

Project description:The process of neural tube closure is a highly complex morphogenetic event that results in the generation of the primordial central nervous system. During formation of the neural tube, the non-neural ectoderm separates from the neighboring neural ectoderm and forms a single layer epithelial sheet that overlies the closed neural tube. Previous work has shown that the non-neural ectoderm is necessary for proper cranial neural tube closure, however little is known about this cell population at the molecular level or how the non-neural ectoderm contributes to neural tube closure. In this study, we used a mouse genetic system to fluorescently label the non-neural ectoderm cells and FACS sorted these cells away from the other cell populations in the neural tube. We performed high throughput RNA-sequencing to identify the transcriptome of the non-neural ectoderm and compared the gene expression profile of non-neural ectoderm cells to the remaining population of cells within the neural tube in order to identify which genes are enriched within the non-neural ectoderm. This analysis provides a clue as to which underlying molecular processes may be important for non-neural ectoderm function during neural tube closure.

2016-04-27 | GSE72059 | GEO

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