|
Status |
Public on Jul 05, 2024 |
Title |
AT2 cells from Cpt1a-KO mouse (#623), LPS |
Sample type |
SRA |
|
|
Source name |
Lung
|
Organism |
Mus musculus |
Characteristics |
tissue: Lung cell type: Primary AT2 cells genotype: Cpt1a-KO (AT2 cell-specific) treatment: Intra-tracheal LPS
|
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 |
N10909-42 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 |
SAMN33021199 |
SRA |
SRX19261135 |