|
| Status |
Public on Jul 05, 2024 |
| Title |
AT2 cells from control mouse (#741), baseline |
| Sample type |
SRA |
| |
|
| Source name |
Lung
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Lung
cell type: Primary AT2 cells
genotype: Sftpc-CreERt2(+/-)
treatment: Baseline
|
| Treatment protocol |
LPS (2 mg/kg; Sigma L2637) was given through intra-tracheal route to the murine lungs to induce acute lung injury.
|
| Growth protocol |
NA
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For AT2 cells, Trizol was used for RNA extraction. For alveolar macrophages,
Libraries were prepared using the SureSelect RNA Library Preparation Kit (Agilent)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
N10909-29
read_count_AT2.txt
|
| Data processing |
Trimming adaptor sequences and removing reads of low quality were performed by cutadapt (v2.4).
Quantified reads were aligned to the mouse genome (GRCm38) by STAR (v2.7.2a) and then gene-level read counts were generated based on the annotations of Gencode (vM25)
Assembly: GRCm38
Supplementary files format and content: tab-delimited text files include read count values for each sample
|
| |
|
| Submission date |
Feb 02, 2023 |
| Last update date |
Jul 05, 2024 |
| Contact name |
Kuei-Pin Chung |
| Organization name |
National Taiwan University Hospital
|
| Department |
Laboratory Medicine
|
| Street address |
No 7, Chung-Shan South Rd
|
| City |
Taipei |
| ZIP/Postal code |
100 |
| Country |
Taiwan |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE224354 |
Alveolar epithelial cells mitigate neutrophilic inflammation in acute lung injury through regulating mitochondrial fatty acid oxidation |
|
| Relations |
| BioSample |
SAMN33021212 |
| SRA |
SRX19261122 |
