|
| Status |
Public on Jul 03, 2024 |
| Title |
WI-38 TGFB1 2 |
| Sample type |
SRA |
| |
|
| Source name |
lung
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: lung
cell line: WI-38
cell type: fibroblast
genotype: WT
treatment: differentition myofibroblast/lipofibroblast (TGFb1 2ng/ml 4days)
|
| Treatment protocol |
differentiation myofibroblast/lipofibroblast
|
| Growth protocol |
WI-38 were maintained in DMEM supplemented with 10% fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit combined with the Qiacube Connect.
according to the manufacturer’s instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
TGFB2
|
| Data processing |
Demutliplexing and FASTQ extraction was performed using bcl2fastq v2.20.0.422.
Primary processing of FASTQ data including quality control, filtering, trimming,alignment of reads and counting of gene-sprecific genes was done using nf-core RNA-seq pipeline v3.7
Analysis of differentially expressed genes was performed using DESeq2.
Assembly: Assembly: HG38
Supplementary files format and content: Supplementary files format and content: Supplementary files format and content: RNA-seq read counts per gene (csv)
|
| |
|
| Submission date |
Apr 15, 2024 |
| Last update date |
Jul 03, 2024 |
| Contact name |
Marek Bartkuhn |
| E-mail(s) |
[email protected]
|
| Organization name |
Justus-Liebig-University Giessen
|
| Department |
Biomedical Informatics and Systems Medicine
|
| Street address |
Aulweg 132
|
| City |
Giessen |
| State/province |
Hessen |
| ZIP/Postal code |
35392 |
| Country |
Germany |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE264038 |
WI-38 cell line as model for myofibroblast and lipofibroblast switch |
|
| Relations |
| BioSample |
SAMN40975559 |
| SRA |
SRX24268493 |
