|
| Status |
Public on Sep 07, 2018 |
| Title |
Control_48h_1 |
| Sample type |
SRA |
| |
|
| Source name |
hepatic stellate cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: hepatic stellate cells
passages: 4
treatment: control 48h
|
| Treatment protocol |
Cells were treated with TGF-β (R&D Systems #240-B) (10 ng/mL) or vehicle for 48h, and recombinant PDGF-BB (Sigma-Aldrich #P3201) (20 ng/mL), TGF-β (R&D Systems #240-B) (10 ng/mL) or vehicle for 2h.
|
| Growth protocol |
Primary human HSCs (ScienCell Research Laboratories, #5300) were grown in DMEM (Life Technologies, #11965092) containing 10% fetal bovine serum FBS (Sigma-Aldrich #F4135) and 1% penicillin/streptomycin (Life Technologies, #15140122).All cell lines were maintained under standard tissue culture conditions (37 °C, 5% CO2 incubator).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNeasy kit (Qiagen) was used to extract total RNA from cells according to the manufacturer’s instructions
TruSeq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
processed data file: HSCs_Control_and_TGFb_raw.tsv
|
| Data processing |
TopHat v2.1.0 for alignment
FeatureCounts to quantify expression
Genome_build: GRCh37
Supplementary_files_format_and_content: tsv format containing raw counts for samples
|
| |
|
| Submission date |
Sep 06, 2018 |
| Last update date |
Sep 07, 2018 |
| Contact name |
Aditya Bhagwate |
| E-mail(s) |
[email protected]
|
| Organization name |
Mayo Clinic
|
| Street address |
200 1st Street SW
|
| City |
Rochester |
| State/province |
MN |
| ZIP/Postal code |
55905 |
| Country |
USA |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE119606 |
Inhibition of Enhancer of Zeste Homologue 2 attenuates TGF-β dependent hepatic stellate cell activation and liver fibrosis |
|
| Relations |
| BioSample |
SAMN09986431 |
| SRA |
SRX4650623 |
