Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Characterization of in vitro cultured alveolar macrophages (AM) transcriptomes

ABSTRACT: To identify molecular characteristics of mouse AMs stimulated with or without Poly(I:C) in the presence of vehicle or MSDC overnight in vitro, we isolated RNA from AMs with various treatments and examined by bulk RNA-seq. We found a large number of cytokine gene profiles were reduced following MSDC treatment in WT AMs, suggesting that MSDC treatment recuced inflammatory response in AMs.

ORGANISM(S): Mus musculus

PROVIDER: GSE216564 | GEO | 2023/12/02

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Characterization of in vitro cultured alveolar macrophages (AM) transcriptomes [bulk RNA-seq]

Project description:To identify molecular characteristics of WT AM without Wnt3a, and WT, b-catenin-deficient or HIF-1a-deficient AM with Wnt3a stimulation in vitro, we isolated RNA from AMs with various treatments and examined by bulk RNA-seq. We found a large number of gene profiles were altered following Wnt3a treatment in WT AMs, while b-catenin and HIF-1a deficiency largely abolished the effects of Wnt3a treatment on AM transcription, suggesting that b-catenin and HIF-1a mediates most downstream effects of Wnt3a in AMs. Indeed,HIF-1a-deficient AMs essentially phenocopied those of b-catenin-deficient AMs, with more than 80% of differentially expressed genes in HIF-1a-deficient AMs overlapping with b-catenin-deficient AMs following Wnt3a treatment.

2021-05-05 | GSE164791 | GEO

Characterization of in vitro cultured alveolar macrophages (AM) transcriptomes following DON treatment

Project description:To identify molecular characteristics of WT AM with or without DON stimulation in vitro, we isolated RNA from AMs with various treatments and examined by bulk RNA-seq. We found a large number of gene profiles were altered following DON treatment in WT AMs, suggesting that DON treatment altered the balance of proliferative versus inflammatory genes in AMs, and glutamine metabolism is important in regulating AM self-renewal ability.

2023-12-31 | GSE210076 | GEO

Characterization of in vitro cultured alveolar macrophages (AM) heterogeneity following Wnt3a treatment [single-cell RNA-seq]

Project description:To understand how Wnt signaling affects AM phenotype in vitro, we treated AMs pooled from 5 WT mice with or without Wnt3a for overnight and performed single-cell RNA sequencing analysis in the cells. Dimensionality reduction analysis of combined control or Wnt3a-treated AMs revealed eight clusters based on their gene expression pattern, and control or Wnt3a-treated AMs were almost mutually exclusive as visualized in UMAP plot.

2021-05-05 | GSE164792 | GEO

Cigarette smoke extract-treated alveolar macrophage-derived extracellular vesicles

Project description:This project is based upon the fundamental observation that alveolar macrophage-derived extracellular vesicles (AM-EVs), when internalized by neighboring epithelial cells, inhibit their infection by influenza virus. This inhibitory activity of AM-EVs is abolished when AMs are treated with cigarette smoke extract (CSE). We chose to survey the AM-EV proteome in an effort to identify candidate proteins whose abundance within EVs was downregulated by CSE treatment of AMs, thus explaining the ability of CSE to abrogate the inhibitory activity against influenza.

2020-06-09 | PXD019528 | Pride

SARS-CoV-2 Evades immune detection in Alveolar Macrophages

Project description:Respiratory infections, like the current pandemic SARS-CoV-2 virus, target the epithelial cells in the respiratory tract. However, alveolar macrophages (AMs) are tissue-resident macrophages located within the alveoli of the lung and they play a key role in the early phases of an immune response to respiratory infections. We expect that AMs are the first immune cells to encounter the SARS-CoV-2 and therefore their reaction to SARS-CoV-2 infection will have a profound impact upon the outcome of the infection. Interferons (IFNs) are antiviral cytokines and the first cytokine produced upon viral infection. Here, we challenge AMs with SARS-CoV-2 and to our surprise find that the AMs are incapable of recognising SARS-CoV-2 and produce IFN. This is in contrast to respiratory pathogens, such as influenza A virus and Sendai virus. Callenge of AMs with those viruses resulted in a robust IFN response. The absence of IFN production by AMs upon challenge could explain the initial asymptotic phase of SARS-CoV-2 infections and argues against the AMs as the source of proinflamatory cytokines later in infection.

2020-10-20 | PXD021685 | Pride

Effect of estradiol on murine alveolar macrophages and RAW264.7 cells in vitro

Project description:Mouse BAL alveolar macrophages from pregnant E14 and control dams are compared to RAW cells cultured with estradiol to determine shared gene expression change patterns induced by pregnancy and estrogen BAL cells from intact pregnant and control mice were directly processed for RNA extraction. RAW cells were cultured overnight with estradiol or vehicle, then RNA was exctracted.

2014-01-01 | E-GEOD-52649 | biostudies-arrayexpress

Characterization of cell subsets in lung tissue from mice treated with or without MSDC-0602K following influenza virus infection

Project description:To understand how a new insulin sensitizer MSDC-0602K affects lung phenotype in vivo, lungs from WT mice treated with DMSO or a new insulin sensitizer MSDC-0602K at day 4 post influenza virus infection were utilized for single-cell RNA sequencing analysis. Dimensionality reduction analysis of combined DMSO or MSDC-0602K-treated lungs revealed 25 clusters based on their gene expression pattern, and cells from those two groups showed similarity as visualized in UMAP plot. Interestingly, MSDC-0602K treatment diminished infiltration of proinflammatory cell types including monocytes or neutrophils while increased percentage of alveolar macrophages or Type I epithelial cells compared to DMSO treatment. Moreover, a number of proinflammatory gene expression was decreased in alveolar macrophages in lungs from MSDC-0602K treated mice.

2023-02-23 | GSE181798 | GEO

Transcriptomic analysis of lung tissue from db/db mice treated with or without MSDC-0602K following influenza virus infection

Project description:To identify molecular characteristics of lung tissue from db/db mice treated with DMSO or a new insulin sensitizer MSDC-0602K at day 5 post influenza virus infection, we isolated RNA from lungs with various treatments and examined by bulk RNA-seq. We found a large number of gene profiles were altered following MSDC-0602K treatment in lungs. Interestingly, a number of genes accounting for pulmonary inflammatory responses were significantly decreased following MSDC-0602K treatment in lungs of db/db mice at day 5 post influenza virus infection. Moreover, MSDC-0602K treated lung tissue showed lower levels of genes related to glucose metabolism.

2023-02-23 | GSE181793 | GEO

Transcriptomic analysis of lung tissue from WT mice treated with or without MSDC-0602K following influenza virus infection

Project description:To identify molecular characteristics of lung tissue from WT mice treated with DMSO or a new insulin sensitizer MSDC-0602K at day 4 post influenza virus infection, we isolated RNA from lungs with various treatments and examined by bulk RNA-seq. We found a large number of gene profiles were altered following MSDC-0602K treatment in lungs. Interestingly, gene sets involved inflammatory responses were enriched in DMSO treatd mouse lungs whereas gene set of fatty acid metabolism was enriched in MSDC-0602K treated mouse lung, suggesting MSDC-0602K treatment diminshed pulmonary inflammation and altered metabolic status during influenza virus infection.

2023-02-23 | GSE181776 | GEO

Trancriptional signatures of dexamethasone-treated sarcoidosis alveolar macrophages (AMs)

Project description:The goal of this study was to determine the effect of dexamethasone treatment on trancriptional signatures and pathways of sarcoidosis AMs.

2020-05-20 | GSE150842 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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