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Foxa2 overexpression is sufficient to establish the p3 neural progenitor chromatin landscape

ABSTRACT: Foxa2 overexpression is sufficient to establish the p3 neural progenitor chromatin landscape

PROVIDER: PRJNA841845 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19372200_1.fastq.gz	Fastqsanger.gz
	SRR19372200_2.fastq.gz	Fastqsanger.gz
	SRR19372201_1.fastq.gz	Fastqsanger.gz
	SRR19372201_2.fastq.gz	Fastqsanger.gz
	SRR19372202_1.fastq.gz	Fastqsanger.gz

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Foxa2 overexpression is sufficient to establish the p3 neural progenitor chromatin landscape

Project description:In many developing tissues the spatial and temporal pattern of gene expression is organised by secreted signals functioning in a graded manner over multiple cell diameters. Cis Regulatory Elements (CREs) interpret these graded inputs to control gene expression. How this is accomplished remains poorly understood. The morphogen Sonic hedgehog (Shh) acts in a graded manner to direct neural progenitor specification in the neural tube. Here, we uncover two distinct ways in which CREs translate graded Shh signaling into differential gene expression. A common set of CREs are used to control gene activity in the majority of ventral neural progenitors. These CREs integrate cell type specific inputs to control gene expression. By contrast, the most ventral progenitors use a unique set of CREs. These are established by the pioneer factor FOXA2, paralleling the role of FOXA2 in endoderm. Moreover, FOXA2 binds a subset of the same sites in neural and endoderm cells. Together the data identify distinct cis regulatory strategies for the interpretation of morphogen signaling and raise the possibility of an evolutionarily conserved role for Foxa2-mediated cell specification across tissues.

2022-06-06 | GSE204664 | GEO

Clustering of strong replicators associated with active promoters is sufficient to establish an early-replicating domain

Project description:Clustering of strong replicators associated with active promoter are sufficient to establish an early-replicating domain

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Mycobacterium sp. P3 strain:P3

Project description:Mycobacterium sp. P3 strain:P3 Genome sequencing

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Streptomyces sp. P3 strain:P3

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Effect of overexpression of FOXA2 on biological behavior of SGC-996

Project description:In order to investigate the role of FOXA2 in the occurrence and development, we infected gallbladder cancer cells with recombinant lentivirus to construct FOXA2 overexpression SGC-996. We then performed gene expression profiling analysis using data obtained from RNA-seq of 6 different gallbladder cancer cells from SGC-996-NC or SGC-996-OE groups.

2023-09-29 | GSE239351 | GEO

Gene expression profile of Huh7 cells upon knock-down of FOXA2 or FOXA2-DS-S

Project description:We used siRNAs to knock-down the gene FOXA2 and the positionally-conserved ncRNA (pcRNA) FOXA2-DS-S is Huh7. We have shown that FOXA2 regulates its own expression by binding its promoter, but it can also affect the expression of the associated pcRNA FOXA2-DS-S. At the same time, we have shown that FOXA2-DS-S is necessary for the expression of the FOXA2 gene. These data suggest that the pcRNA acts locally, in cis, to regulate the expression of FOXA2. With this microarray experiment with aimed to explore further the genome-wide transcriptional effects of FOXA2-DS-S or FOXA2 knock-down.

2018-01-09 | E-MTAB-4517 | biostudies-arrayexpress

Clustering of strong replicators associated with active promoters is sufficient to establish an early-replicating domain

Project description:Clustering of strong replicators associated with active promoters is sufficient to establish an early-replicating domain

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Foxa2 identifies a novel ventricular-specific cardiac progenitor population during gastrulation.

Project description:The recent identification of novel progenitor populations that contribute to the developing heart in a distinct temporal and spatial manner has fundamentally improved our understanding of cardiac development. However, little remains known about cardiac specification events prior to the establishment of the heart tube, or the mechanisms that direct atrial versus ventricular specification. We have identified a novel progenitor population that gives rise specifically to cardiovascular cells of the ventricles but not the atria, and to the epicardium of the differentiated heart. We determined that this cell population is first specified during gastrulation, when it transiently expresses Foxa2, a gene not previously implicated in cardiac development. Using chimeric mosaic analysis we further demonstrate that Foxa2 is cell-autonomously required for the development of ventricular cells. Finally, we reveal the existence of an analogous Foxa2+ cardiac mesoderm population during in vitro differentiation from embryonic stem cells and illustrate that these cells express genes relevant for heart development. Our data thus describe the first progenitor population identified as early as gastrulation that displays ventricular-specific differentiation potential. Together, these findings provide important new insights into the developmental origin of ventricular and atrial myocytes, and will lead to the establishment of new strategies for generating these cell types from pluripotent stem cells.

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Project description:In order to identify the subset of genes directly regulated by Foxa2 in the liver, we performed genome-wide location analysis. Chromatin immunoprecipitation (ChIP) samples from livers of wild type and Foxa2 liver-conditional null mice (Foxa2loxP/loxPAlfp.Cre) were hybridized to a mouse enhancer/promoter microarray with more than 36,000 elements (BCBCPromChip 5). This analysis identified 574 enhancer and promoter regions, corresponding to 484 unique genes, as occupied by Foxa2 in the adult liver.

2008-07-14 | E-MEXP-1675 | biostudies-arrayexpress

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