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RNA-Seq analysis in human trophoblast stem cells (CT27) upon depletion of transcription factor GATA2 or GATA3

ABSTRACT: RNA-Seq analysis in human trophoblast stem cells (CT27) upon depletion of transcription factor GATA2 or GATA3

PROVIDER: PRJNA886427 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24768117_1.fastq.gz	Fastqsanger.gz
	SRR24768117_2.fastq.gz	Fastqsanger.gz
	SRR24768118_1.fastq.gz	Fastqsanger.gz
	SRR24768118_2.fastq.gz	Fastqsanger.gz
	SRR24768119_1.fastq.gz	Fastqsanger.gz

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RNA-Seq analysis in human trophoblast stem cells (CT27) upon depletion of transcription factor GATA2 or GATA3

Project description:The GATA transcription factors, particularly GATA2 and GATA3 are responsible for trophoblast stem cells self renewal and differentiation in mice. However, we have a poor understanding about the contribution of GATA2 and GATA3, in the trophoblast cells in humans. Thus, the goal of this study is to define the importance of GATA factors in orchestrating global gene expression program in human trophoblast stem cells. Using a RNA interference strategy (RNAi), we depleted GATA2 or GATA3 expression in human trophoblast stem cells (GATA2 KD or GATA3 KD) . We then differentiated GATA2 KD and GATA3 KD human trophoblast stem cells into syncytiotrophoblasts(SynT) and compared global gene expression patterns via RNA sequencing (RNA-seq). Three individual experiments were performed for the differentiated SynT state. The submitted files contain the data (raw fastq files, count data and deseq2 output) from those experiments.

2024-01-26 | GSE214634 | GEO

Cut and run analysis in human trophoblast stem cells (CT27) upon pulling down with GATA2 and GATA3 antibody

Project description:GATA transcription factors, particularly GATA2 and GATA3 are selectively expressed in the extraembryonic trophoblast lineage and regulates gene expression to promote trophoblast self-renewal during mammalian development. However, we have a poor understanding about the contribution of these GATA factors, in the process of syncytiotrophoblast (SynT) development. Thus, the goal of this study is to define the importance of GATA2 and GATA3 in orchestrating a global gene expression program that poises and commits mammalian trophoblast stem cells to the SynT lineage. Using the cut and run technique for GATA2 and GATA3 antibodies in the human trophoblast stem cells we are aiming to identify the direct targets of the GATA transcription factors that are essential for determining the SynT lineage. Three individual experiments were performed.

2024-01-26 | GSE214486 | GEO

Cut and run analysis in human trophoblast stem cells (CT27) upon pulling down with GATA2 and GATA3 antibody

Project description:Cut and run analysis in human trophoblast stem cells (CT27) upon pulling down with GATA2 and GATA3 antibody

| PRJNA885508 | ENA

Genome wide mapping of chromatin binding sites of GATA2, GATA3, TFAP2A, TFAP2C transcription factors in trophoblast progenitors derived from human embryonic stem cells

Project description:Human embryonic stem cells (hESC) can be differentiated into progenitors resembling trophoblast upon exposure to BMP4. Among the earliest transcription factors that are activated after the BMP4 stimulation are GATA2, GATA3, TFAP2A and TFAP2C. Using trophoblast progenitors at day 3 of BMP4-induced differentiation, here we profile the chromatin binding landscape of these 4 early transcription factors to analyse their putative targets and cross-connectivity in regualtion of trophoblast commitment.

2017-10-18 | GSE105081 | GEO

Gata3 acts alongside Cdx2 to promote trophoblast gene expression downstream of Tead4 during mouse development

Project description:The first lineage decisions during mouse development lead to establishment of embryonic and extraembryonic tissues. The transcription factor Cdx2 plays a central role by repressing pluripotency genes, such as Oct4 and promoting trophoblast fate at the blastocyst stage. Here we show that the transcription factor Gata3 is coexpressed with Cdx2 in the blastocyst and that overexpression of Gata3 in embryonic stem cells is sufficient to induce expression of trophoblast genes. Gata3 expression in the blastocyst does not depend on Cdx2, nor do Gata3 overexpressing cell lines require Cdx2 for expression of a subset of trophoblast genes. In the embryo, expression of Gata3, like Cdx2, depends on Tead4, and expression of both factors becomes restricted to nascent trophoblast by an Oct4-independent mechanism. These observations place Tead4 at the top of a trophoblast hierarchy, with Gata3 and Cdx2 acting downstream to induce expression of common and independent targets in this lineage. This SuperSeries is composed of the following subset Series: GSE12985: Differentiation time course of trophoblast stem cells GSE12986: Expression of Cdx2 or Gata3 in R1 mouse embryonic stem cells

2010-02-21 | E-GEOD-12999 | biostudies-arrayexpress

PRMT1 recruitment and H4R3Me2a modification in control and PRMT1-depleted trophoblast progenitor

Project description:To understand PRMT1 recruitment and associated changes in histone H4 arginine3 di-methylation at the chromatin region in trophoblast progenitors, we performed CUT&RUN experiments in CT27 human trophoblast stem cells (CT27 hTSCs) and in primary trophoblast stem and progenitor cells (TSPCs) in mouse embryonic day (E) 7.5 ectoplacental cone region (EPC). For CT27 hTSCs, experiments were done in both control and PRMT1-knockdown CT27 hTSC. We also tested RNA polymerase II recruitment in these cells.

2026-06-15 | GSE295846 | GEO

Genetic Redundancy of GATA Factors in Extraembryonic Trophoblast Lineage Ensures Progression of both Pre and Postimplantation Mammalian Development [RNA-seq]

Project description:GATA transcription factors are implicated in establishing cell fate during mammalian development. In early mammalian embryos, GATA3 is selectively expressed in the extraembryonic trophoblast lineage and regulates gene expression to promote trophoblast fate. However, trophoblast-specific GATA3 function is dispensable for early mammalian development. Here, using dual conditional knockout mice, we show that genetic redundancy of GATA3 with paralog GATA2 in trophoblast progenitors ensures the successful progression of both pre and postimplantation mammalian development. Stage-specific gene deletion in trophoblasts reveals that loss of both GATA genes, but not either one alone, leads to embryonic lethality prior to the onset of their expression within the embryo proper. Using ChIP-seq and RNA-seq analyses, we define the global targets of GATA2/GATA3 and show that they directly regulate a large number of common genes to orchestrate stem vs. differentiated trophoblast fate. Also, in trophoblast progenitors GATA factors directly regulate BMP4, Nodal and Wnt signaling components that promote embryonic-extraembryonic signaling cross-talk, essential for the development of the embryo proper. Our study provides genetic evidence that impairment of trophoblast-specific GATA2/GATA3 function could lead to early pregnancy failure.

2017-01-25 | GSE92292 | GEO

Genetic Redundancy of GATA Factors in Extraembryonic Trophoblast Lineage Ensures Progression of both Pre and Postimplantation Mammalian Development [ChIP-seq]

2017-01-25 | GSE92287 | GEO

Gata3 acts alongside Cdx2 to promote trophoblast gene expression downstream of Tead4 during mouse development

2010-02-01 | GSE12999 | GEO

RNA-Seq analysis in human trophoblast stem cells (CT27) upon depletion of Hippo signaling Component TAZ (WWTR1)

Project description:RNA-Seq analysis in human trophoblast stem cells (CT27) upon depletion of Hippo signaling Component TAZ (WWTR1)

| PRJNA780018 | ENA