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Retrospective identification of cell-intrinsic factors that mark pluripotency potential in rare somatic cells (scRNA-Seq)

ABSTRACT: Retrospective identification of cell-intrinsic factors that mark pluripotency potential in rare somatic cells (scRNA-Seq)

PROVIDER: PRJNA943421 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR23817306.fastq.gz	Fastqsanger.gz
	SRR23817307.fastq.gz	Fastqsanger.gz
	SRR23817308.fastq.gz	Fastqsanger.gz
	SRR23817309.fastq.gz	Fastqsanger.gz
	SRR23817310.fastq.gz	Fastqsanger.gz

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Retrospective identification of cell-intrinsic factors that mark pluripotency potential in rare somatic cells

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Retrospective identification of cell-intrinsic factors that mark pluripotency potential in rare somatic cells

Project description:Pluripotency can be induced in somatic cells by the expression of the four “Yamanaka” factors OCT4, KLF4, SOX2, and MYC. However, even in homogeneous conditions, usually only a rare subset of cells admit reprogramming, and the molecular characteristics of this subset remain unknown. Here, we apply retrospective clone tracing to identify and characterize the individual human fibroblast cells that are primed for reprogramming. These fibroblasts showed markers of increased cell cycle speed and decreased fibroblast activation. Knockdown of a fibroblast activation factor identified by our analysis led to increased reprogramming efficiency, identifying it as a barrier to reprogramming. Changing the frequency of reprogramming by inhibiting the activity of LSD1 led to an enlarging of the pool of cells that were primed for reprogramming. Our results show that even homogeneous cell populations can exhibit heritable molecular variability that can dictate whether individual rare cells will reprogram or not.

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Retrospective identification of cell-intrinsic factors that mark pluripotency potential in rare somatic cells (scRNA-Seq)

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Project description: Not available

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Retrospective identification of cell-intrinsic factors that mark pluripotency potential in rare somatic cells.

Project description: Not available

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ENCODE cell phenotype retrospective study

Project description:These samples are part of the ENCODE consortium’s proposed time-limited Pilot Study for confirmation of the utility of RNA abundance measurements as a standard reference phenotyping tool. Keywords: cell type comparison For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Each of the 7 ENCODE laboratories submitted at least one of the two Tier1 cell lines. These were processed on Affymetrix Exon 1.0 ST arrays to obtain retrospective phenotyping data for each cell line.

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GNPS - DOM samples from Aruba 2019 for Mark Vermeij

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Project description:DNA Methylation profiles were generated for retrospective cases to support work into investigation of the immune environment in pediatric ependymoma. Samples were analyzed using the Illumina 450k beadchip and processed using the Heidelberg classifier (v11.2b and subsequently v12.3 for subgrouping/subtyping). The aim of the study was to better understand the immune-tumor microenvironment in pediatric ependymoma and the methylation profiles support the diagnoses of each case.

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