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Signature of lung epithelial and mesenchymal populations from control, irradiated and neutrophil-depleted irradiated mice

ABSTRACT: We analysed the signature of sorted CD45-CD31-Ter119-EpCAM+ lung epithelial cells and CD45-CD31-Ter119-EpCAM- lung mesenchymal cells from the control vs. irradiated lungs of BALB/c mice.

ORGANISM(S): Mus musculus

PROVIDER: GSE180823 | GEO | 2021/12/01

REPOSITORIES: GEO

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Transcriptome analysis of synovial osteoprogenitor populations in mice with antigen-induced arthritis and non-immunized mice

Project description:The aim of this experiment was to analyze differences in gene expression between potential osteoprogenitor populations in synovial compartment of non-immunized mice and mice with antigen-induced arthritis (AIA). We analyzed transcriptome of TER119–CD31–CD45–CD51+CD200+CD105– cells from nonimmunized mice, TER119–CD31–CD45–CD51+CD200+CD105– cells from mice with arthritis, and TER119–CD31–CD45–CD51+CD200–CD105+ from mice with arthritis. Comparison between nonimmunized and arthritic mice served to determine changes in TER119–CD31–CD45–CD51+CD200+CD105–population induced by arthritis. Comparison of TER119–CD31–CD45–CD51+CD200+CD105– and TER119–CD31–CD45–CD51+CD200–CD105+ from mice with arthritis aimed to define transcriptomic differences between those two populations.

2020-05-05 | GSE148130 | GEO

Single-Cell RNA-sequencing of lung mesenchymal cells at multiple time points after bleomycin injury

Project description:Mesenchymal cells (CD31-, CD45-, EpCAM-, Ter119-) were collected for 10x Genomics Chromium Single Cell v3.1 scRNA-seq from the lungs of Scube2-CreER/Rosa26-tdTomato double homozygous mice on day 0 , 7, 14, 21 after bleomycin treatment.

2024-04-18 | GSE210341 | GEO

Transcription as a function of tissue environment

Project description:We are interested in whether fibroblasts (CD45-CD31-Epcam-PDPN+PDGFRA+) cells exhibit unique transcriptional profiles. To this end, we digested tissues and FACS sorted CD45-CD31-Epcam-PDPN+PDGFRA+ fibroblasts CD45-CD31-Epcam-PDPN+PDGFRA- mesothelial cells and compared the transcriptional profiles of these cells. PRJ0014647

2019-07-16 | GSE130813 | GEO

Unbiased proteomics profiling of pulmonary immune cells originating from irradiated lungs, non-irradiated lungs, or lungs from control mice

Project description:One murine lung was irradiated using 6Gyx5 X-ray exposure. Following irradiation, CD45+ (immune) were sorted from the ipsilateral (irradiated) and contralateral (non-irradiated) lung. Cells from non-irradiated controls were also collected. Proteins from the immune cells were extracted using the MPLEx method. Proteins were reduced with DTT, alkylated with Iodoacetamide, and digested using trypsin. 5 ul of 0.1 ug/ul of peptides were analyzed by LC-MS/MS on a Thermo Q Exactive Orbitrap instrument.

| MSV000090379 | MassIVE

RNA-seq profiling of gene expression in Ezh2-deficient and control murine lung epithelial and stromal cell populations at day E16.5

Project description:Epithelial (CD31-CD45-EpCAM+) and stromal (CD31-CD45-EpCAM-) lung cells were derived by FACS from ShhCre;Ezh2fl/fl and control ShhCre;Ezh2fl/+ mouse embryos at day E16.5 (3 biological replicates per genotype-tissue combination). Total RNA extracted from the samples was subjected to NGS library preparation using TruSeq Stranded Total RNA with Ribo-Zero (Illumina). Completed libraries from different samples were sequenced on HiSeq 2000 TruSeq with SBS Kit v3 - HS reagents (Illumina) as 100 bp single end reads at the Australian Genome Research Facility.

2015-05-11 | GSE57391 | GEO

RNA-seq profiling of gene expression in Ezh2-deficient and control murine lung epithelial and stromal cell populations at day E16.5

2015-05-11 | E-GEOD-57391 | biostudies-arrayexpress

Vessel Forming Mesenchymal Stromal Cell Populations

Project description:We have identified two vessel forming mesenchymal stromal cell populations. Population 1 (P1) is CD45-Ter119-Tie2+PDGFRa-CD31+CD105highSca1low and gives rise to stunted vessels (incomplete tubular structures) in a transplant setting, and Population 2 (P2) which is CD45-Ter119-Tie2+PDGFRa+CD31-CD105lowSca1high and forms stunted vessels and fat. To test the homogeneity and signal interactions of these populations we performed 10X single cell RNA-sequencing on them.

2023-02-18 | GSE181177 | GEO

Signature of lung epithelial and mesenchymal populations from control, irradiated and neutrophil-depleted irradiated mice

Project description:Signature of lung epithelial and mesenchymal populations from control, irradiated and neutrophil-depleted irradiated mice

| PRJNA749725 | ENA

Sentinel p16INK4a+ cells in the basement membrane form a reparative niche in the lung [RNA-Seq]

Project description:We collected freshly sorted mesenchyme (live CD45-Epcam-CD31-PDGFRa+GFP- or GFP+) from dissociated lung tissue of INKBRITE animals to characterize the transcriptome difference between p16INK4a+ vs p16INK4a- cells at homeostasis and during injury. We used fluorescence activated cell sorting (FACS) to exclude immune (CD45+), epithelial (Epcam+), and endothelial (CD31+) cells and positively select for PDGFRa+ mesenchyme. Cells were sequenced at a depth of average of 45 million reads/sample. The results revealed an increase of senescence associated secretory phenotype (SASP) signature in p16INK4+ cells that becomes refined after injury. We found the expression of an epithelial growth factor epiregulin (ereg) increased in p16INK4a+ cells after injury suggesting a possible role of p16INK4a+ senescence during regeneration of lung epithelium.

2022-11-02 | GSE140654 | GEO

Expression profiles of cell populations purified from human CRC (4 ways)

Project description:The survival of isolated metastatic cells and expansion into macroscopic tumour has been recognized as a limiting step for metastasis formation in several cancer types yet the determinants of this process remain largely uncharacterized. In colorectal cancer (CRC), we identify a transcriptional programme in tumour-associated stromal cells, which is intimately linked to a high risk of developing recurrent disease after therapy. A large proportion of CRCs display mutational inactivation of the TGF-beta pathway but paradoxically they are characterized by high TGF-beta production. In these tumours, TGF-beta instructs a transcriptional programme in stromal cells, which confers a high risk of developing metastatic disease. We purified by FACS CD31(+), CD45(+), FAP(+) and Epcam(+) populations from fresh CRC samples and assessed their gene expression profiles Freshly obtained tumours from 6 CRC patients treated at Hospital del Mar or Hospital Clinic (Barcelona, Spain) were minced and incubated with Collagenase IV (100 U mL-1). Enzymatic reaction was stopped by adding 10% FBS, single cells were collected by sequential filtering and resuspended in ammonium chloride (0.15M) to lyse erythrocytes. Cells were stained with FAP unconjugated rabbit antibody. After two washes with HBSS, cells were stained with an APC conjugated anti-rabbit antibody; anti-hEPCAM/TROP1-FITC, anti-CD31-PE and anti-CD45-PE-Cy7 conjugated antibody. Dead cells were labelled with Propidium Iodide. Fluorescence Activated Cell Sorting (FACS) was used to separate 2000 cells from each population; [CD45(+), EPCAM(-), CD31(-), FAP(-)], [CD45(-) EPCAM(+), CD31(-), FAP(-)], [CD45(-), EPCAM(-), CD31(+),FAP(-)] and [CD45(-), EPCAM(-), CD31(-), FAP(+)].

2013-01-17 | E-GEOD-39396 | biostudies-arrayexpress

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