Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Polyvinyl alcohol expanded mouse HSC cultures (scRNA-Seq)

ABSTRACT: We previously reported a polyvinyl alcohol-based mouse hematopoietic stem cell (HSC) culture protocol that efficiently expanded transplantable HSCs for at least a month ex vivo (Wilkinson et al., Nature 2019). Here, we investigated the molecular consequences of oxygen concentration on 28-day ex vivo HSC cultures using single cell RNA-seq

ORGANISM(S): Mus musculus

PROVIDER: GSE207742 | GEO | 2023/02/07

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Polyvinyl alcohol expanded mouse HSC cultures (bulk RNA-Seq)

Project description:We previously reported a polyvinyl alcohol-based mouse hematopoietic stem cell (HSC) culture protocol that efficiently expanded transplantable HSCs for at least a month ex vivo (Wilkinson et al., Nature 2019). Here, we investigated the molecular consequences of oxygen concentration on 28-day ex vivo HSC cultures using bulk RNA-seq

2023-02-07 | GSE207740 | GEO

Polyvinyl alcohol expanded mouse HSC cultures

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

2023-02-07 | GSE207743 | GEO

3’-Seq HSC/MPP1-4

Project description:Here, we present a 3’-Seq dataset of ex vivo isolated mouse multipotent hematopoietic stem cells (HSC) and multipotent progenitor cells (MPP1-4)

2020-06-01 | E-MTAB-7391 | biostudies-arrayexpress

Alcohol feeding promotes colonic permeability and changes in colonic organoid stem cell fate

Project description:Alcohol increases intestinal permeability to pro-inflammatory microbial products including endotoxin and this is a key step in alcohol-induced organ damage such as alcoholic liver disease. Elevated intestinal permeability is observed even after a period of sobriety. We sought to investigate mechanisms contributing to long-term effects of alcohol on intestinal permeability by testing the hypothesis that alcohol affects intestinal stem cells using ex vivo organoids generated from jejunum and colon from chronic alcohol fed mice.

2018-02-14 | GSE99291 | GEO

Alcohol metabolism directly fuels histone acetylation in the brain

Project description:This SuperSeries is composed of the SubSeries listed below. Reviewers: for a UCSC Genome Browser session of the chIP-seq and the ex vivo RNA-seq, please see: https://genome.ucsc.edu/cgi-bin/hgTracks?hgS_doOtherUser=submit&hgS_otherUserName=Gdonahue&hgS_otherUserSessionName=Alcohol%20Metabolism%20Publication

2019-08-01 | GSE122188 | GEO

ATAC-seq of immunophenotypic LT-HSC and ST-HSC from umblical cord blood in cytokine-rich ex vivo culture conditions following sphingolipid modulation

Project description:To investigate how ex vivo culture affects chromatin accessibility in cultured HSC, we performed the Assay for Transposase Accessible Chromatin with high-throughput sequencing (ATAC-Seq) on cLT (CD34+CD90+CD45RA-) and cST populations purified from 8 day cultured lineage depleted cord blood (lin- CB) cells treated with 3-Factor (4HPR+UM171+SR1), U+S or 4HPR as well as untreated and vehicle-treated (DMSO) control populations. The subsequent ATAC-seq data was compared to chromatin accessibility signatures generated from uncultured hematopoietic stem and progenitor populations (Takayama, et al.). We found that ex vivo culture shifted cLT and cST cells isolated from control or untreated samples to a chromatin accessibility profiles not found in LT-HSC, suggesting some loss of a stem-cell associated chromatin state. By contrast, 4HPR-treated, to some extent, and 3-Factor-treated HSC maintained chromatin accessibility features of uncultured LT-HSC.

2019-11-19 | GSE125212 | GEO

Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC

Project description:Characterization of human erythropoiesis using ex vivo differentiation of CD34 HSC

| PRJNA517958 | ENA

Alcohol metabolism directly fuels histone acetylation in the brain [ChIP-Seq]

Project description:In the adult brain, epigenetic control of gene expression has important roles in the processing of neural activity. Emerging evidence suggests that epigenetic regulation is dependent on metabolic state, implicating specific metabolic factors in neural functions that drive behavior. In neurons, histone acetylation is dependent on the metabolite acetyl-CoA that is produced from acetate by chromatin-bound ACSS21. Here, using in vivo stable isotope labeling in mouse, we show that alcohol metabolism rapidly fuels histone acetylation in the brain by direct deposition of alcohol-derived acetyl groups onto histones in an ACSS2-dependent manner. A similar induction was observed with heavy labeled acetate injection in vivo. Injection of labeled alcohol into a pregnant mouse results in incorporation of labeled acetyl groups into gestating fetal brains, indicating that the acetate passes through the placenta. In isolated primary hippocampal neurons ex vivo, extracellular acetate induced learning and memory-related transcriptional programs that were sensitive to ACSS2 inhibition. Strikingly, alcohol-related associative learning requires ACSS2 in vivo. These findings establish a novel and direct link between alcohol metabolism and neuronal ACSS2-dependent histone acetylation in the brain, providing evidence that dynamic acetate release from liver metabolism may travel to the brain for direct epigenetic regulation in neurons.

2019-08-01 | GSE122186 | GEO

Alcohol metabolism directly fuels histone acetylation in the brain [RNA-Seq]

2019-08-01 | GSE122181 | GEO

Alcohol metabolism directly fuels histone acetylation in the brain [RNA-Seq II]

2019-08-01 | GSE122384 | GEO