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Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells(ATAC-seq in cytokine and LPS:polyIpolyC experiments))

ABSTRACT: Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells(ATAC-seq in cytokine and LPS:polyIpolyC experiments))

PROVIDER: PRJNA787097 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17167189.fastq.gz	Fastqsanger.gz
	SRR17167190.fastq.gz	Fastqsanger.gz
	SRR17167191.fastq.gz	Fastqsanger.gz
	SRR17167192.fastq.gz	Fastqsanger.gz
	SRR17167193.fastq.gz	Fastqsanger.gz

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Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (RNA-seq of HSCs after cytokine stimulation)

Project description:Hematopoietic stem cells (HSCs) exhibit considerable cell-intrinsic changes with age. Here, we performed an integrated analysis of transcriptome and chromatin accessibility of aged HSCs and downstream progenitors. Alterations in chromatin accessibility preferentially took place in HSCs with aging, which gradually resolved with differentiation. Differentially open accessible regions (open DARs) in aged HSCs showed enrichment of binding motifs of the STAT, ATF, and CNC family transcription factors that are activated in response to external stresses, and most of them comprised active, primed , and inactive enhancers. Genes linked to open DARs showed significantly higher levels of basal expression and their expression reached significantly higher peaks after cytokine stimulation in aged HSCs than in young HSCs, suggesting that open DARs contribute to augmented transcriptional responses under stress conditions. These results indicate that the ongoing and/or history of exposure to external stresses is epigenetically inscribed in HSCs to augment their responses to external stimuli.

2021-03-19 | GSE169206 | GEO

Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (RNA-seq of MPPs after cytokine stimulation)

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Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (RNA-seq of MPPs after cytokine stimulation)

Project description:Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (RNA-seq of MPPs after cytokine stimulation)

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Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (RNA-seq of HSCs after cytokine stimulation)

Project description:Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (RNA-seq of HSCs after cytokine stimulation)

| PRJNA715644 | ENA

Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells

Project description:This SuperSeries is composed of the SubSeries listed below. Hematopoietic stem cells (HSCs) exhibit considerable cell-intrinsic changes with age. Here, we performed an integrated analysis of transcriptome and chromatin accessibility of aged HSCs and downstream progenitors. Alterations in chromatin accessibility preferentially took place in HSCs with aging, which gradually resolved with differentiation. Differentially open accessible regions (open DARs) in aged HSCs showed enrichment of binding motifs of the STAT, ATF, and CNC family transcription factors that are activated in response to external stresses, and most of them comprised active, primed , and inactive enhancers. Genes linked to open DARs showed significantly higher levels of basal expression and their expression reached significantly higher peaks after cytokine stimulation in aged HSCs than in young HSCs, suggesting that open DARs contribute to augmented transcriptional responses under stress conditions. These results indicate that the ongoing and/or history of exposure to external stresses is epigenetically inscribed in HSCs to augment their responses to external stimuli.

2020-12-05 | GSE162662 | GEO

Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells

Project description:Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells

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Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (RNA-seq)

2020-12-05 | GSE162607 | GEO

Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells(ATAC-seq)

2020-12-05 | GSE162551 | GEO

Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells(ATAC-seq in cytokine and LPS:polyIpolyC experiments))

Project description:Aging of the hematopoietic system is associated with cytopenia and increased risk of hematological malignancies. To investigate cell-intrinsic factors underlying aging of hematopoiesis, we profiled transcriptome, chromatin accessibility, histone modifications in young and aged Hematopoietic stem cells (HSCs) and progenitors. Various differentially expressed genes were detected in each fraction. Changes of transcriptome were more drastic in progenitors than in HSCs. In contrast, aberrant chromatin accessible regions were accumulated particularly in aged HSCs without affecting steady-state transcriptions of nearest genes. These regions were enriched for motif of STAT3, STAT5, c-Jun-CRE, NF-E2, NRF2. We also found H3K27me3 marked genes and bivalent genes were substantially decreased in aged HSCs, some of which became active state and some of which became more repressive state with increased DNA methylation. Our data indicates that integrated analysis of epigenome and transcriptome provides more profound insights into aging of hematopoietic systems.

2021-12-08 | GSE190419 | GEO

Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (EZH2_KO_HSC)

Project description:Epigenetic traits inscribed in chromatin accessibility in aged hematopoietic stem cells (EZH2_KO_HSC)

| PRJNA682587 | ENA