Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia [GeoMx]

ABSTRACT: Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia [GeoMx]

PROVIDER: PRJNA938781 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	SRR23648701_1.fastq.gz	Fastqsanger.gz
	SRR23648701_2.fastq.gz	Fastqsanger.gz
	SRR23648702_1.fastq.gz	Fastqsanger.gz
	SRR23648702_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 155

Similar Datasets

Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia [GeoMx]

Project description:The COVID-19 pandemic continues to be a health crisis with major unmet medical needs. The early responses from airway epithelial cells, the first target of the virus regulating the progression towards severe disease, are not fully understood. Primary human air-liquid interface cultures representing the broncho-alveolar epithelia were used to study the kinetics and dynamics of SARS-CoV-2 variants infection. The infection measured by nucleoprotein expression, was a late event appearing between day 4-6 post infection for Wuhan-like virus. Other variants demonstrated increasingly accelerated timelines of infection. All variants triggered similar transcriptional signatures, an “early” inflammatory/immune signature preceding a “late” type I/III IFN, but differences in the quality and kinetics were found, consistent with the timing of nucleoprotein expression. Response to virus was spatially organized: CSF3 expression in basal cells and CCL20 in apical cells. Thus, SARS-CoV-2 virus triggers specific responses modulated over time to engage different arms of immune response.

2023-05-02 | GSE225602 | GEO

Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia

Project description:Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia

| PRJNA938778 | ENA

Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia [RNA-seq]

2023-05-02 | GSE225601 | GEO

Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia [RNA-seq]

Project description:Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia [RNA-seq]

| PRJNA939531 | ENA

Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia.

Project description: Not available

| S-EPMC10374611 | biostudies-literature

Spatiotemporally organized immunomodulatory response to SARS-CoV-2 virus in primary human broncho-alveolar epithelia

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

2023-05-02 | GSE225603 | GEO

STAT3 overexpression lentivirus infect human broncho epithelial cells

Project description:To find the role of STAT3 in human broncho epithelial cell, we extracted RNA from HBE infected with NC, WTSTAT3 and MuSTAT3 overexpression lentivirus

2025-12-02 | GSE288010 | GEO

Broncho brushing samples from healthy donors and Job's Syndrome patients

Project description:To find the DEGs between healthy donors and Job's Syndrome patients, we extracted RNA from broncho brushing samples collected from healthy donors and Job's Syndrome patients.

2025-12-02 | GSE288011 | GEO

GeoMX spatial transcriptomics of diffuse pleural mesothelioma: impact of CDKN2A deletion

Project description:We compared GeoMX spatially resolved gene expression profiles of diffuse pleural mesothelioma (DPM) samples with or without somatic CDKN2A deletion. 5 CDKN2Adel and 4 WT DPM samples were analyzed. A total of 202 Areas Of Illumination (AOIs) were transcriptionally profiled, of which 140 Sarcomatoid-AOIs (S-AOIs) and 62 Epithelioid-AOIs (E-AOIs). Collectively, 97 AOIs belonged to WT DPM and 105 to CDKN2Adel DPMs.Profiling was performed using the GeoMx™Digital Spatial Profiler with Cancer Transcriptome Atlas panel.

2026-05-01 | E-MTAB-15378 | biostudies-arrayexpress

Spatially resolved transcriptomic profiling: an experimental comparison of GeoMx Digital Spatial Profiling and Visium CytAssist spatial transcriptomics in three cancer types (GeoMx)

Project description:We performed Visium CytAssist (10X), GeoMx DSP (Nanostring) and Chromium Flex (10X Genomics) full transcriptome profiling on Breast Cancer (BC), Lung Cancer (LC) and diffuse large B cell lymphoma (DLBCL) samples from archival FFPE blocks. We explore the data quality across blocks with different storage times and DV200 values for all the three methods. We compared the cell type signature purity between ST methods Visium and GeoMx by utilising pathology annotations and scRNAseq. For the Visium and Chromium methods with a large number of data points we explored the heterogeneity between tissues. Finally, we demonstrate the discovery of patient-specific tumor-TME interactions across all three methods.

2024-11-01 | E-MTAB-14566 | biostudies-arrayexpress

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