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Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression [GRO-seq]

ABSTRACT: Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression [GRO-seq]

PROVIDER: PRJNA681618 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR13169605.fastq.gz	Fastqsanger.gz
	SRR13169606.fastq.gz	Fastqsanger.gz
	SRR13169607.fastq.gz	Fastqsanger.gz
	SRR13169608.fastq.gz	Fastqsanger.gz
	SRR13169609.fastq.gz	Fastqsanger.gz

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Similar Datasets

Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression [GRO-seq]

Project description:Pontin is a AAA+ ATPase protein that has functions in various biological contexts including gene transcription regulation, chromatin remodeling, DNA damage sensing and repair, as well as assembly of protein and ribonucleoprotein complexes. Pontin is known to regulate the transcription of several important signaling pathways, including Wnt signaling. However, its role in early embryonic signaling regulation remains unclear. Retinoic acid (RA) signaling plays a central role in vertebrate development. Using an in vivo biotin tagging technology, we mapped the genome-wide binding pattern of Pontin before and after RA-induced differentiation in the pluripotent embryo carcinoma cell line NTEAR-2. Biotin ChIP-seq revealed significant changes in genome-wide Pontin binding sites upon RA stimulation. We also identified a substantial amount of overlapping binding peaks between Pontin and RARα, especially on all of the HOX gene loci (A-D clusters). Pontin knockdown experiments showed that its chromatin binding at the HOX gene clusters is required for RA-induced HOX gene expression. Furthermore, we performed Global Run-On sequencing (GRO-seq) to map de novo transcripts genome-wide and found that Pontin knockdown significantly diminished nascent HOX gene transcripts, indicating that Pontin regulates HOX gene expression at the transcriptional level. Finally, proteomic analysis demonstrated that Pontin associates with chromatin organization/remodeling complexes and various other functional complexes. Altogether, we have demonstrated that Pontin is a critical transcriptional co-activator for RA-induced HOX gene activation.

2021-06-16 | GSE162371 | GEO

Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression [ChIP-seq]

2021-06-16 | GSE162360 | GEO

Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression

Project description:Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression

| PRJNA681616 | ENA

Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression [ChIP-seq]

Project description:Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression [ChIP-seq]

| PRJNA681598 | ENA

Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression.

Project description:Pontin is a AAA+ ATPase protein that has functions in various biological contexts including gene transcription regulation, chromatin remodeling, DNA damage sensing and repair, as well as assembly of protein and ribonucleoprotein complexes. Pontin is known to regulate the transcription of several important signaling pathways, including Wnt signaling. However, its role in early embryonic signaling regulation remains unclear. Retinoic acid (RA) signaling plays a central role in vertebrate development. Using an in vivo biotin tagging technology, we mapped the genome-wide binding pattern of Pontin before and after RA-induced differentiation in the pluripotent embryo carcinoma cell line NTERA-2. Biotin ChIP-seq revealed significant changes in genome-wide Pontin binding sites upon RA stimulation. We also identified a substantial amount of overlapping binding peaks between Pontin and RARα, especially on all of the HOX gene loci (A-D clusters). Pontin knockdown experiments showed that its chromatin binding at the HOX gene clusters is required for RA-induced HOX gene expression. Furthermore, we performed Global Run-On sequencing (GRO-seq) to map de novo transcripts genome-wide and found that Pontin knockdown significantly diminished nascent HOX gene transcripts, indicating that Pontin regulates HOX gene expression at the transcriptional level. Finally, proteomic analysis demonstrated that Pontin associates with chromatin organization/remodeling complexes and various other functional complexes. Altogether, we have demonstrated that Pontin is a critical transcriptional co-activator for RA-induced HOX gene activation.

| S-EPMC8184613 | biostudies-literature

Pontin Functions as A Transcriptional Co-activator for Retinoic Acid-induced HOX Gene Expression

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-06-16 | GSE162372 | GEO

mRNA profiling of Pontin WT and RA under glucose starvation

Project description:To determine which genes are affected by methylated Pontin, we performed RNA-sequencing (RNA-seq) in Pontin WT and RA MEFs after glucose starvation.

2020-10-26 | GSE130069 | GEO

Expression of foetal gene Pontin is essential in protecting heart against pathological remodelling and cardiomyopathy

Project description:Cardiac remodelling is a key process in the development of heart failure. Reactivation of foetal cardiac genes is often associated with cardiac remodelling. Here we study the role of Pontin (Ruvbl1), which is highly expressed in embryonic hearts, in mediating adverse remodelling in adult mouse hearts. We observe that Pontin deficiency in cardiomyocytes leads to induced apoptosis, increased hypertrophy and fibrosis, whereas Pontin overexpression improves survival, increases proliferation and reduces the hypertrophic response. Moreover, RNAseq analysis show that genes involved in cell cycle regulation, cell proliferation and cell survival/apoptosis are differentially expressed in Pontin knockout and transgenic overexpression mice. Specifically, we detect changes in the expression of Hippo pathway components in the Pontin knockout and transgenic mice. Using a cellular model we show that Pontin induces YAP activity, YAP nuclear translocation, and transcriptional activity. Our findings identify Pontin as a modulator of adverse cardiac remodelling, possibly via regulation of the Hippo pathway. This study may lead to the development of a new approach to control cardiac remodelling by targeting Pontin.

2024-12-11 | GSE282958 | GEO

mRNA profiling of Pontin depleted ES cells and Oct4 depleted ES cells

Project description:In order to investigate the cooperative roles of Pontin and Oct4 for self-renewal and pluripotency in mouse ES cells, we performed mRNA-sequencing analysis from mRNAs isolated from Pontin- and Oct4-depleted ES cells. This analysis provides insight into molecular mechanisms for maintaining ES cell identity. mRNA expression profiles of Pontinf/f; CreER ES cells at 0, 3, or 4 days post-treatment with OHT (wild type and Pontin-depleted ES cells) and ZHBTc4 ES cells at 2 days post-treatment with tetracycline (Oct4-depleted ESE cells) were examined by Illumina Hiseq2000.

2015-10-16 | E-MTAB-1953 | biostudies-arrayexpress

Genome binding/occupancy profiling of methylated Pontin under glucose starvation

Project description:To determine where methylated Pontin is recruited, we performed ChIP-sequencing (ChIP-seq) in WT MEFs after glucose starvation.

2020-10-26 | GSE157952 | GEO

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