Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single-cell RNA-seq in alveolar organoids cultured in MTECplus medium

ABSTRACT: single-cell RNA-seq in alveolar organoids cultured in MTECplus medium

PROVIDER: PRJNA594269 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10611114_1.fastq.gz	Fastqsanger.gz
	SRR10611114_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 2 of 2

Similar Datasets

single-cell RNA-seq in alveolar organoids cultured in MTECplus medium

Project description:We performed Drop-seq using alveolar organoids cultured in MTECplus medium to identify cell types, gene expression patterns and signaling pathways in ex vivo condition.

2020-06-02 | GSE141634 | GEO

scRNA-seq of Human Alveolar Type 2 Cell Organoids

Project description:Alveolar type 2 (AT2) cells function as stem cells in the adult lung and aid in injury-repair. The current study aimed to understand the signaling events that control differentiation of this therapeutically relevant cell type during human development through differentiation of lung progenitor organoids to AT2 cells and benchmarking against primary AT2 organoids.

2023-06-15 | E-MTAB-12960 | biostudies-arrayexpress

Single-cell sequencing of muose thymic epithelial cell organoids

Project description:Mouse thymic epithelial cell organoids, cultured in (1) expansion medium, (2) differentiation medium, or (3) differentiation medium with Rank ligand and retinoic acid (DM+RR), were FACS sorted into plates to follow the SORT-seq protocol (Muraro et al., 2016).

2024-04-05 | GSE236925 | GEO

Human alveolar progenitors generate dual lineage bronchioalveolar organoids

Project description:Mechanisms of epithelial renewal in the alveolar compartment remain incompletely understood. To this end, we aimed to characterize alveolar progenitors. Single-cell RNA-seq (scRNA-seq) analysis of the HTII-280 positive and HTII-280+ /EpCAM+populations from total 6 donors from periferal tissue was performed, and analysis revealed subclusters enriched for stem cell signature genes. We found that these alveolar progenitors in organoid culture in vitro show phenotypic lineage plasticity as they can yield alveolar or bronchial cell type progeny. The direction of the differentiation is dependent on the presence of the GSK-3β inhibitor, CHIR99021. By RNA-seq analysis of GSK-3 βknockdown organoids, we identify additional functional candidate target genes and pathways which contribute to alveolar differentiation independent of Wnt signaling

2022-07-08 | GSE197949 | GEO

Mouse feeder-free alveolar organoids treated by bleomycin

Project description:To investigate the direct effect of bleomycin on alveolar epithelium, feeder-free mouse alveolar organoids were treated by bleomycin (100μM) for 48 hours in vitro and then analyzed.

2022-08-21 | GSE211531 | GEO

Single-Cell RNA Sequencing Reveals Human iPS Cell-derived Alveolar Type 1 Cells in Alveolar Organoids

Project description:Single-Cell RNA Sequencing Reveals Human iPS Cell-derived Alveolar Type 1 Cells in Alveolar Organoids

| PRJNA607523 | ENA

Single-Cell RNA Sequencing Reveals Human iPS Cell-derived Alveolar Type 1 Cells in Alveolar Organoids

Project description:Human induced pluripotent stem cells (hiPSCs) were differentiated into alveolar epithelial cells in the fibroblast-dependent (FD) or fibroblast-free (FF) alveolar organoids (AO). Then the epithelial cells in FD-AOs or FF-AOs were subjected to scRNA-seq. Then, human iPSC-derived AT1 (iAT1) cells were demonstrated to be included in FD-AOs, not in FF-AOs. In addition, XAV-939 increased iAT1 cell population in FD-AOs.

2020-11-26 | GSE145539 | GEO

ChIP-seq of mouse alveolar organoids treated with bleomycin

Project description:In fibrotic lung, upregulation of p53 signaling in alveolar epithelium is observed. Then, we performed p53 ChIP-seq using alveolar organoids to investigate genes directly targeted by p53 protein in bleomycin-treated p53-upregulated alveolar epithelial cells.

2023-05-07 | GSE231445 | GEO

Comparison of iPSC-derived alveolar epithelial cell culture methods

Project description:We established a novel alveolar epithelial culture method, called "On-Gel" culture. To characterize the "On-Gel" culture, we compared each transcriptome of the cultured cells in "On-Gel", fibroblast dependent-alveolar organoids (FD-AO) and fibroblast-free alveolar organoids (FF-AO) and their progenitor cells (CPMhigh Lung Progenitors).

2024-02-29 | GSE241335 | GEO

Isotope Tracing Analysis in Intestinal Organoids with fructose

Project description:We isolated and cultured Intestinal Organoids from Mouse. To trace the metabolism of fructose, intestinal organoids were cultured in unlabeled fructose-containing DMEM/F12 medium (10 mM D-fructose, 0 mM D-glucose, 2.5 mM L-glutamine) for 12 hr, and then switched into 13C labeled fructose-containing medium (10 mM U-[13C] D-fructose, Sigma-aldrich) for 6 hr.

2020-12-09 | ST001622 | MetabolomicsWorkbench

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data