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Links from GEO DataSets

Items: 20

1.
Full record GDS5004

Adult alveolar type 2 and embryonic bipotent progenitor lung cells

Analysis of adult alveolar type (AT) 2 and E18 bipotent progenitor (BP) lung cells. During development, AT1 and AT2 cells arise from a BP; after birth, new AT1 cells derive from rare, long-lived, self-renewing mature AT2 cells. Results provide insight into the molecular basis of AT2 self-renewal.
Organism:
Mus musculus
Type:
Expression profiling by array, count, 2 age, 2 cell type sets
Platform:
GPL1261
Series:
GSE49346
6 Samples
Download data: CEL, CHP
2.

Expression data from adult ATII and E18 Bipotent progenitor cells in the mouse lung

(Submitter supplied) Alveoli are thin-walled sacs that serve as the gas exchange units of the lung. They are affected in devastating lung diseases including COPD, Idiopathic Pulmonary Fibrosis, and the major form (adenocarcinoma) of lung cancer, the leading cause of cancer deaths. The alveolar epithelium is composed of two morphologically distinct cell types: alveolar type (AT) 1 cells, exquisitely thin cells across which oxygen diffuses to reach the blood, and AT2 cells, specialized surfactant-secreting cells. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS5004
Platform:
GPL1261
6 Samples
Download data: CEL, CHP
Series
Accession:
GSE49346
ID:
200049346
3.

High throughput quantitative whole transcriptome analysis of adult mouse distal lung mesenchyme

(Submitter supplied) We used microfluidic single cell RNA-seq on 47 individual mouse lung mesenchymal cells at adulthood to measure the transcriptional state. We were able to classify these cells into distinct populations as well as map their signaling interactions with the distal lung epithelium and endothelium. In this manner, single cell RNA-seq can be used to unbiasedly determine the signals the dictate construction and maintenance of the alveolus.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
48 Samples
Download data: FPKM_TRACKING
Series
Accession:
GSE109444
ID:
200109444
4.

Dlk1-Mediated Temporal regulation of Notch Signaling is Required for Differentiation of Alveolar Type II to Type I Cells during Lung Repair

(Submitter supplied) Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived retinal transcriptome profiling (RNA-seq) to microarray and quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis Methods: Lung epithelia cells were collected after 10 days of treatment by pseudomonas aeruginosa (PA), RNA-Seq and qRT-PCR were applied to analyze the high-throughput data Results: In general, the mutant type II-like cells expressed higher levels of type I cell markers and lower levels of type II cell markers
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
6 Samples
Download data: TXT
Series
Accession:
GSE124259
ID:
200124259
5.

Emergence of Wnt signaling during lung alveologenesis expands and maintains the type 2 alveolar epithelial cell population

(Submitter supplied) Alveologenesis is the culmination of lung development and involves the correct temporal and spatial signals to generate the delicate gas exchange interface. Using a novel Wnt signaling reporter system, we have identified a Wnt-responsive alveolar epithelial sublineage arising during alveologenesis called the axin2+ alveolar type 2 cell or AT2Aaxin2. The number of AT2Aaxin2 sublineage cells increases substantially during late lung development, revealing a wave of Wnt signaling during alveologenesis. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL16570
10 Samples
Download data: CEL
Series
Accession:
GSE82154
ID:
200082154
6.

The single cell RNA seq of pulmonary alveolar epithelial cells

(Submitter supplied) The pulmonary alveolar epithelium which play key role in lung biological function is mainly composed of two types of epithelial cells: alveolar type I (AT1) and type II (AT2) cells. We know very little about developmental heterogeneity of the AT1 cell population. By using 10X genomics “Chromium Single Cell” technology, we performed single-cell RNA-seq (scRNA-seq) analyses of AT1 cells at postnatal day 3 (P3), P15, and P60, along with AT2 cells (P60) in mice. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
4 Samples
Download data: CSV
Series
Accession:
GSE106960
ID:
200106960
7.

Inflammatory Signals induce AT2 Cell-Derived Damage-Associated Transient Progenitors that Mediate Alveolar Regeneration

(Submitter supplied) Tissue regeneration is a multi-step process mediated by diverse cellular hierarchies and states that are also implicated in tissue dysfunction and pathogenesis. Here, we leveraged single-cell RNA sequencing in combination with in vivo lineage tracing and organoid models to finely map the trajectories of alveolar lineage cells during injury repair and lung regeneration. We identified a distinct AT2-lineage population, Damage-Associated Transient Progenitors (DATPs), that arises during alveolar regeneration. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
6 Samples
Download data: MTX, TSV
Series
Accession:
GSE145031
ID:
200145031
8.

Inflammatory Signals induce AT2 Cell-Derived Damage-Associated Transient Progenitors that Mediate Alveolar Regeneration

(Submitter supplied) Tissue regeneration is a multi-step process mediated by diverse cellular hierarchies and states that are also implicated in tissue dysfunction and pathogenesis. Here, we leveraged single-cell RNA sequencing in combination with in vivo lineage tracing and organoid models to finely map the trajectories of alveolar lineage cells during injury repair and lung regeneration. We identified a distinct AT2-lineage population, Damage-Associated Transient Progenitors (DATPs), that arises during alveolar regeneration. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21103
4 Samples
Download data: BW
Series
Accession:
GSE144598
ID:
200144598
9.

Inflammatory Signals induce AT2 Cell-Derived Damage-Associated Transient Progenitors that Mediate Alveolar Regeneration

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21103
12 Samples
Download data: BW, MTX, TSV
Series
Accession:
GSE144553
ID:
200144553
10.

Inflammatory Signals induce AT2 Cell-Derived Damage-Associated Transient Progenitors that Mediate Alveolar Regeneration

(Submitter supplied) Tissue regeneration is a multi-step process mediated by diverse cellular hierarchies and states that are also implicated in tissue dysfunction and pathogenesis. Here, we leveraged single-cell RNA sequencing in combination with in vivo lineage tracing and organoid models to finely map the trajectories of alveolar lineage cells during injury repair and lung regeneration. We identified a distinct AT2-lineage population, Damage-Associated Transient Progenitors (DATPs), that arises during alveolar regeneration. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21103
2 Samples
Download data: MTX, TSV
Series
Accession:
GSE144468
ID:
200144468
11.

Etv5 ChIP-seq in AT2 cells

(Submitter supplied) Alveolar type II (AT2) cell dysfunction contributes to a number of significant human pathologies including respiratory distress syndrome, lung adenocarcinoma, and debilitating fibrotic diseases, but the critical transcription factors that maintain AT2 cell identity are unknown. Here we show that the E26 transformation-specific (ETS) family transcription factor Etv5 is essential tomaintain AT2 cell identity. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17021
3 Samples
Download data: TXT
Series
Accession:
GSE111569
ID:
200111569
12.

Etv target genes in mouse alveolar type II cells

(Submitter supplied) RNA was purified from lung tissue and isolated Alveolar type II cells. The "SAMPLE_ID" sample description is a sample identifier internal to Genentech. The ID of this project in Genentech's ExpressionPlot database is PRJ0005064
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
12 Samples
Download data: TSV
Series
Accession:
GSE80102
ID:
200080102
13.

Etv5 target genes in AT2 cells and mouse lung

(Submitter supplied) RNA was purified from lung tissue and isolated Alveolar type II cells. The "SAMPLE_ID" sample description is a sample identifier internal to Genentech. The ID of this project in Genentech's ExpressionPlot database is PRJ0007671
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
19 Samples
Download data: TSV
Series
Accession:
GSE80101
ID:
200080101
14.

Development and Plasticity of Alveolar Type 1 Cells

(Submitter supplied) The alveolar type 1 (AT1) cell covers >95% of the gas exchange surface and is extremely thin to facilitate passive gas diffusion. The development of this highly specialized cell is poorly understood including fundamental questions regarding cell number and morphology. Using new molecular stereology and single cell imaging methods, we show that AT1 cells develop via a non-proliferative two-step process while maintaining proliferative potential. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
4 Samples
Download data: TXT
Series
Accession:
GSE73861
ID:
200073861
15.

Transcriptomic analysis of control lung alveolar type 2 cells and constitutively active-BMPR1a overexpressing alveolar type 2 cells

(Submitter supplied) The Bone Morphogenetic Protein (BMP) signaling pathway functions in lung development and the regeneration of adult tracheal epithelium from basal stem cells. Here, we explore its role in the alveolar region, where Type 2 epithelial cells (AT2s) and Pdgfrα+ Type 2 - associated stromal cells (TASCs) are components of the stem cell niche. We utilize both organoid assays and in vivo alveolar regrowth after pneumonectomy (PNX) - a process requiring proliferation of AT2s and differentiation into Type 1 cells (AT1). more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21273
6 Samples
Download data: TXT
Series
Accession:
GSE112431
ID:
200112431
16.

High throughput quantitative whole transcriptome analysis of distal mouse lung epithelial cells from various developmental stages (E14.5, E16.5, E18.5 and adult)

(Submitter supplied) We used microfluidic single cell RNA-seq on 198 individual mouse lung epithelial cells at 4 different stages throughout development to measure the transcriptional states which define the developmental and cellular hierarchy of the distal mouse lung epithelium. We classified 80 cells comprising the distal lung epithelium at E18.5 into distinct populations using an unbiased genome-wide approach that did not require a priori knowledge of the underlying cell types or prior purification of cell types. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL16417 GPL13112
201 Samples
Download data: FPKM_TRACKING
Series
Accession:
GSE52583
ID:
200052583
17.

Plasticity of Hopx+ Type I alveolar cells to regenerate Type II cells in the lung

(Submitter supplied) Hopx is a transcription co-factor expressed during lung development and we wanted to profile Hopx +/+ and -/- embyonic lungs. Results inform the role of Hopx in embryonic lung development
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
6 Samples
Download data: CEL
Series
Accession:
GSE65755
ID:
200065755
18.

Drug toxicology models by using hiPSC-derived alveolar organoids (AOs)

(Submitter supplied) Microarray analysis was performed to obtain the transcriptomes of GNE7915-, amioarone- and vehicle control-treated hiPSC-derived SFTPC+ cells.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL17077
9 Samples
Download data: TXT
Series
Accession:
GSE99939
ID:
200099939
19.

Single cell analysis of SFTPC+ cells and CPM-high progenitor cells derived from human induced pluripotent stem cells (hiPSCs)

(Submitter supplied) We stepwisely induced SFTPC+ cells from hiPSCs via CPM-high progenitor cells with or without coculturing human fetal lung fibroblasts. Single-cell RNA-seq of CPM-high progenitor and hiPSC-derived SFTPC+ cells demonstrated their differentiation process and cellular heterogeneity.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
479 Samples
Download data: TXT
Series
Accession:
GSE90813
ID:
200090813
20.

Expansion of SFTPC+ cells from human induced pluripotent stem cell-derived CPMhigh progenitor cells by forming alveolar organoids

(Submitter supplied) Microarray analysis was performed on CPMhigh progenitor cells, P0 SFTPC+ cells, P2 SFTPC+ cells, and P5 SFTPC+ cells derived form human induced pluripotent stem cells (B2-3 SFTPC-GFP reporter hiPSCs), and parental 201B7 hiPSC-derived proximal airway epithelial cells (PAECs) and primary isolated human adult alveolar epithelial (adult AT2) cells, respectively.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL17077
18 Samples
Download data: TXT
Series
Accession:
GSE90591
ID:
200090591
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