Similar Datasets
Project description:Tissue fibrosis is a common pathological outcome of chronic disease that markedly impairs organ function leading to morbidity and mortality. In the lung, idiopathic pulmonary fibrosis (IPF) is an insidious and fatal interstitial lung disease associated with declining pulmonary function. Single cell RNA sequencing was used to map epithelial cell types of the normal human airway and alveolaor as well as IPF explant tissue.
2020-09-24 | GSE146981 | GEO
Project description:Healthy donor and idiopathic pulmonary fibrosis (IPF) patient lung tissues were digested, Lin–EpCAM+ cells were isolated with FACS, and then single-cell RNA-seq was performed.
2022-05-24 | GSE157996 | GEO
Project description:Radiation Induced Lung Injury (RILI) is one of the main limiting factors of thorax irradiation, which can induce acute pneumonitis as well as pulmonary fibrosis, the latter being a life-threatening condition. The order of cellular and molecular events in the progression towards fibrosis is key to the physiopathogenesis of the disease, yet their coordination in space and time remains largely unexplored. Here, we present an interactive murine single cell atlas of the lung responses to irradiation. This analysis opens the door for exploration of the spatio-temporal dynamics of the mechanisms that lead to radiation-induced pulmonary fibrosis. It depicts with unprecedented detail cell type-specific radiation-induced responses associated with either lung regeneration or the failure thereof. A better understanding of the mechanisms leading to lung fibrosis will help finding new therapeutic options that could improve patients’ quality of life.
2023-03-20 | GSE211713 | GEO
Project description:Our current understanding of CTEPH pathobiology is primarily derived from cell-based studies limited by the use of specific cell markers or phenotypic modulation in cell culture. Therefore, our main objective is to identify the multiple cell types that comprise the CTEPH thrombus and to study their dysfunction. Here we used single cell RNA sequencing (scRNAseq) of tissue removed at the time of pulmonary endarterectomy (PEA) surgery from five patients to identify the multiple cell types. Our scRNAseq identify the multiple cell types including macrophages, T cells, and smooth muscle cells, that comprise CTEPH thrombus. Notably, multiple macrophage subclusters were identified but broadly split into two categories, with the larger group characterized by an upregulation of inflammatory signaling predicted to promote pulmonary vascular remodeling. Both CD4+ and CD8+ T cells were identified and likely contribute to chronic inflammation in CTEPH. Smooth muscle cells were a heterogeneous population, with a cluster of myofibroblasts that express markers of fibrosis and are predicted to arise from other smooth muscle cell clusters based on pseudotime analysis. Lastly, our analysis identified protease-activated receptor 1 (PAR1) as a potential therapeutic target that links thrombosis to chronic PE in CTEPH
2023-02-07 | GSE224143 | GEO
Project description:Pulmonary fibrosis (PF) is a form of chronic lung disease characterized by progressive destruction of normal alveolar gas-exchange surfaces and accumulation of extracellular matrix (ECM). In order to comprehensively define the cell types, mechanisms and mediators driving ECM deposition and fibrotic remodeling in lungs with pulmonary fibrosis, we performed single-cell RNA-sequencing (scRNA-seq) of single-cell suspensions generated from non-fibrotic control and PF lungs. Analysis of over 114,000 cells from 20 PF and 10 control lungs identified 31 distinct cell types. We identified multiple distinct lineages directly contribute to ECM expansion, including a novel HAS1hi fibroblast subtype and a previously undescribed KRT5-/KRT17+, collagen and ECM-producing epithelial cell population that was highly enriched in PF lungs. Together these data provide high-resolution insights into the basic mechanisms of pulmonary fibrosis, and indicate a direct profibrotic role of the lung epithelium in PF pathogenesis.
2019-09-05 | GSE135893 | GEO
Project description:Single cell RNAseq has revolutionized study of rare cell types. Here we use single cell RNA sequencing to determine the expression profiles of hundreds of the rare pulmonary neuroendocrine cells (PNECs) in mouse and human lungs.
2022-12-06 | GSE191178 | GEO
Project description:The data represent whole genome sequencing of two sequential isolates of B. contaminans ST872 that have been retrieved form a cystic fibrosis patient during different phases of chronic pulmonary infection.
2016-05-13 | E-MTAB-4649 | biostudies-arrayexpress
Project description:The human small airway epithelium (SAE) plays a central role in the early events in the pathogenesis of most chronic inherited and acquired lung disorders. Little is known about the molecular phenotypes of the specific cell populations comprising the SAE, and the contribution of specific cell populations to the pathogenesis of human disease. There was cell type-specific expression of the genes relevant to the pathogenesis of the inherited pulmonary disorders, genes associated with risk of chronic obstructive pulmonary disease (COPD) and idiopathic pulmonary fibrosis (IPF), and (non-mutated) driver genes for lung cancers. Some unexpected observations included high expression of CFTR (cystic fibrosis) and SCNN1A and B (bronchiectasis) in ionocytes, DTNBP1 (Hermansky-Pudlak syndrome) in mast cells, FAM13A (COPD) in neuroendocrine cells, RIN3 (COPD) in mast cells, NSPA1L (IPF) in neuroendocrine cells and a variety of lung cancer-related genes expressed in different cell types that, if mutated, become driver genes. Cigarette smoking significantly altered the cell-specific transcriptome of the different cell populations. Many of the genes relevant to the hereditary and acquired disorders exhibited cell-specific modulation by cigarette smoking, including MUC5B (IPF) down-regulation specifically in intermediate, club and mucus-producing cells and SFTPB (surfactant deficiency) up-regulation in ionocytes.
2020-08-02 | GSE123405 | GEO
Project description:The respiratory system undergoes remarkable structural, biochemical, and functional changes necessary for adaptation to air breathing at birth. To identify dynamic changes in gene expression in the diverse pulmonary cells at birth, we performed Drop-seq based massive parallel single-cell RNA sequencing. An iterative cell type identification strategy was used to unbiasedly identify the heterogeneity of murine pulmonary cell types on postnatal day 1. Distinct populations of epithelial, endothelial, mesenchymal, and immune cells were identified, each containing distinct subpopulations. Cell type predictions and signature genes identified using Drop-seq were cross-validated using an independent single cell isolation platform. Temporal changes in RNA expression patterns were compared before and after birth to identify signaling pathways selectively activated in specific pulmonary cell types, demonstrating activation of UPR signaling during perinatal adaptation of the lung. Present data provide the first single cell view of the adaptation to air breathing after birth. All data from the present study are freely accessed at https://research.cchmc.org/pbge/lunggens/SCLAB.html.
2019-01-06 | GSE122331 | GEO
Project description:Chronic lung allograft dysfunction (CLAD) is the leading cause of death in lung transplant recipients. CLAD is characterized clinically by a persistent decline in pulmonary function and histologically by the development of airway centered fibrosis known as bronchiolitis obliterans. We performed single-cell sequencing and spatial transcriptomic analysis of explanted tissues from human lung recipients with CLAD and donor control lungs.
2023-03-21 | GSE224210 | GEO