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The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [CUT&Tag]

ABSTRACT: The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [CUT&Tag]

PROVIDER: PRJNA1077080 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR27982446_1.fastq.gz	Fastqsanger.gz
	SRR27982446_2.fastq.gz	Fastqsanger.gz
	SRR27982447_1.fastq.gz	Fastqsanger.gz
	SRR27982447_2.fastq.gz	Fastqsanger.gz
	SRR27982448_1.fastq.gz	Fastqsanger.gz

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Similar Datasets

The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [CUT&Tag]

Project description:Induced pluripotent stem cells (iPSCs) technology offers great promise for scientific research and clinical applications. iPSCs can be generated from various cell types through different strategies. Two different pluripotent states, naive and primed, can be captured in vitro, corresponding to the pre- and post-implantation stages of in vivo development, respectively, with naive pluripotency being considered to possess better developmental potential. We can obtain naïve iPSCs and primed iPSCs through somatic cell reprogramming. Despite well-characterized transcriptional and epigenetic changes, the dynamic of the chromatin landscape during naïve and primed iPSC reprogramming is poorly understood, especially in humans. In this study, we applied ATAC-seq and RNA-seq to delineate the chromatin landscape in the human secondary reprogramming system towards naive and primed pluripotency. We identified several transcription factors and epigenetic factors which were crucial to reprogramming chromatin remodeling. We found that two isoforms of the same gene PRDM1, PRDM1alpha and PRDM1beta, targeted different genomic loci to function in divergent roles during naive reprogramming. We proposed a cross-regulation model of PRDM1alpha and PRDM1beta function. Together, this research highlights the diversity of the transcription factors in determining the chromatin landscape dynamics and regulating pluripotent cell fates.

2024-11-29 | GSE255860 | GEO

The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming

Project description:The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming

| PRJNA1076848 | ENA

The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [RNA-seq]

Project description:The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [RNA-seq]

| PRJNA1077079 | ENA

The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [ATAC-seq]

Project description:The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [ATAC-seq]

| PRJNA1077081 | ENA

The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [RNA-seq]

2024-11-29 | GSE255861 | GEO

The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming [ATAC-seq]

Project description:Induced pluripotent stem cells (iPSCs) technology offers great promise for scientific research and clinical applications. iPSCs can be generated from various cell types through different strategies. Two different pluripotent states, naive and primed, can be captured in vitro, corresponding to the pre- and post-implantation stages of in vivo development, respectively, with naive pluripotency being considered to possess better developmental potential. We can obtain naïve iPSCs and primed iPSCs through somatic cell reprogramming. Despite well-characterized transcriptional and epigenetic changes, the dynamic of the chromatin landscape during naïve and primed iPSC reprogramming is poorly understood, especially in humans. In this study, we applied ATAC-seq and RNA-seq to delineate the chromatin landscape in the human secondary reprogramming system towards naive and primed pluripotency. We identified several transcription factors and epigenetic factors which were crucial to reprogramming chromatin remodeling. We found that two isoforms of the same gene PRDM1, PRDM1α and PRDM1β, targeted different genomic loci to function in divergent roles during naive reprogramming. We proposed a cross-regulation model of PRDM1α and PRDM1β function. Together, this research highlights the diversity of the transcription factors in determining the chromatin landscape dynamics and regulating pluripotent cell fates.

2024-11-29 | GSE255859 | GEO

The divergent role of two PRDM1 isoforms during human naïve pluripotency reprogramming

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

2024-11-29 | GSE255862 | GEO

Prdm1

Project description:Prdm1

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PRDM1 inhibits proliferation of human colon cancer organoids

Project description:We reports the transcript landscape of PR Domain Containing 1, with ZNF domain (PRDM1) in RKO colon cancer cells. We show that PRDM1 alpha and PRDM1 beta transcript isoforms repress and activate a largely overlapping suite of genes, many of which belong to the embryonic stem cell core transcript program.

2017-07-21 | GSE101668 | GEO

Transcriptomic effects of forced expression of FOXO3, PRDM1⍺ and PRDM1β in pre-B ALL cell line 697 [exp1]

Project description:Lentiviral constructs expressing candidate tumoure suppressor genes were transduced into 697 cells. Of the candidates FOXO3, two isoforms of PRDM1 (⍺ and β) suppressed growth in-vitro and in-vivo. To indentify tumour suppressor mechanisms we extracted RNA from triplicate 697 cultures four days after transduced with empty vector (SIN-SIEW) or constructs expressing FOXO3, PRDM1⍺ or PRDM1β. Approximately 90 million 100bp paired-end reads were generated per sample by illumina sequencing.

2022-10-01 | GSE193347 | GEO

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