Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

An inflammatory memory of COVID-19 in airway basal stem cells impairs mucociliary differentiation (ATAC-Seq)

ABSTRACT: An inflammatory memory of COVID-19 in airway basal stem cells impairs mucociliary differentiation (ATAC-Seq)

PROVIDER: PRJNA875395 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR21376239_1.fastq.gz	Fastqsanger.gz
	SRR21376239_2.fastq.gz	Fastqsanger.gz
	SRR21376240_1.fastq.gz	Fastqsanger.gz
	SRR21376240_2.fastq.gz	Fastqsanger.gz
	SRR21376241_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 10

Similar Datasets

An inflammatory memory of COVID-19 in airway basal stem cells impairs mucociliary differentiation

Project description:An inflammatory memory of COVID-19 in airway basal stem cells impairs mucociliary differentiation

| PRJNA875391 | ENA

An inflammatory memory of COVID-19 in airway basal stem cells impairs mucociliary differentiation (RNA-Seq)

Project description:An inflammatory memory of COVID-19 in airway basal stem cells impairs mucociliary differentiation (RNA-Seq)

| PRJNA875398 | ENA

An inflammatory memory of COVID-19 in airway basal stem cells impairs mucociliary differentiation (ATAC-Seq)

Project description:Airway basal stem cells (BSCs) in chronic lung diseases accumulate memories to promote disease-specific pathogenesis. Whether acute lung infection also endows BSCs with an inflammatory memory to impair epithelial regeneration is unknown. Here, we derived multiple BSC lines from patients with and without COVID-19 (CoV19) using tracheal aspirate (TA) as a viable source of bronchial BSCs. While tested negative for SARS-CoV-2, BSC lines from CoV19 patients bore a proinflammatory gene signature, exhibited early cell cycle exist, and displayed goblet cell hypoplasia following differentiation in air-liquid interface (ALI). These phenotypes reproduced, at least partially, changes in BSCs in patients with CoV19 assessed by bioinformatic analysis of preexisting single cell transcriptomes of BSCs and by staining of lung sections for select markers. Such a memory in BSCs previously exposed to CoV19 was mediated by increases in chromosomal accessibility at key inflammatory gene loci associated with gene dysregulation and sustained STAT3 activation. Blockade of STAT3 hyperactivation in CoV19-exposed BSCs restored mucociliary differentiation in ALI. Taken together, BSCs acquire an epigenetic memory of CoV19 to impair epithelial regeneration. BSC derivation from TA provides a versatile approach to model airway epithelium in health and lung diseases.

2023-06-01 | GSE212410 | GEO

An inflammatory memory of COVID-19 in airway basal stem cells impairs mucociliary differentiation (RNA-Seq)

2023-06-01 | GSE212411 | GEO

Expression data from airway basal cells and mucociliary-differentiated epithelium of COPD patients and normal subjects

Project description:Continuous stress caused by smoking induces changes in the cell population of small airway epithelium, with basal cell hyperplasia and goblet cell metaplasia at the expense of ciliated cells, and there is now compiling evidence that basal cells play a key role in the early pathogenesis of Chronic Obtructive Pulmonary Disease (COPD). We hypothesized that COPD airway basal cells undergo transcriptomic changes during differentiation that are different from those observed in normal cells and can explain the formation of an abnormal epithelium. We performed microarray analysis of basal cells obtained from healthy non-smoker and COPD subjects and also mucociliary-differentiated cell cultures from the same basal cells. We compared the transcriptome of normal and COPD basal cells, mucociliary-differentiated normal and COPD cell cultures and also of basal cells with corresponding mucociliary-differentiated cultures for both normal and COPD.

2020-10-31 | GSE137557 | GEO

MicroRNA signature during the time course of regeneration of the human airway mucociliary epithelium

Project description:The regeneration of the airway mucociliary epithelium involves several sequential events including migration, proliferation, polarization and final differentiation (i.e ciliogenesis). The airway mucociliary epithelium is consituted of three main cell types : ciliated cells, secretory cells and basal cells. We used microRNA microrrays to investigate the signature of microRNA during the four step of regeneration of the airway epithelium. Four time points (ALI-D0, ALI-D7, ALI-D14, ALI-D21) of regeneration of the airway epithelium for 3 donors.

2011-06-06 | E-GEOD-22141 | biostudies-arrayexpress

MicroRNA signature during the time course of regeneration of the human airway mucociliary epithelium

Project description:The regeneration of the airway mucociliary epithelium involves several sequential events including migration, proliferation, polarization and final differentiation (i.e ciliogenesis). The airway mucociliary epithelium is consituted of three main cell types : ciliated cells, secretory cells and basal cells. We used microRNA microrrays to investigate the signature of microRNA during the four step of regeneration of the airway epithelium.

2011-06-07 | GSE22141 | GEO

Transcriptome analysis during the time course of regeneration of the human airway mucociliary epithelium

2011-06-07 | GSE22142 | GEO

Transcriptome analysis during the time course of regeneration of the human airway mucociliary epithelium

Project description:The regeneration of the airway mucociliary epithelium involves several sequential events including migration, proliferation, polarization and final differentiation (i.e ciliogenesis). We used microarrays to detail the global programme of gene expression that occurs during regeneration and ciliogenesis of the human airway mucociliary epithelium. The four time points of regeneration of the airway epithelium (ALI-D0 which corresponds to the end of proliferation step; ALI-D7 which corresponds to the polarization step; ALI-D14 which corresponds to the onset of ciliogenesis and ALI-D21 corresponding to the terminal differentiation step) for RNA extraction and hybridization on Affymetrix microarrays.

2011-06-06 | E-GEOD-22142 | biostudies-arrayexpress

Effect of IL-13 on transcriptome of differentiated human airway mucociliary epithelium

Project description:We used microarrays to detail the global programme of gene expression that occurs in response to treatment of IL-13 on fully-differentiated human airway mucociliary epithelium

2019-01-10 | GSE110799 | GEO

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