|
| Status |
Public on Jan 25, 2019 |
| Title |
HiBEC_Ctrl3 |
| Sample type |
SRA |
| |
|
| Source name |
Biliary Epithelial Cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Human Intrahepatic Biliary Epithelial Cells (HIBEC)
passage: P4-6
agent: Vehicle (Control)
|
| Treatment protocol |
Recombinat human TGF-beta at 10ng/ml for 48 hours
|
| Growth protocol |
Cells grown in H69 media used for cholangiocyte cell lines
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen Kit
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
3_HiBEC_Ctrl3
|
| Data processing |
TopHat v2.1.0 for alignment
FeatureCounts to quantify expression
edgeR for defining differentially expressed genes
Genome_build: GRCh38 (hg38)
Supplementary_files_format_and_content: tsv format containing edgeR differential expression results along with RPKM values
|
| |
|
| Submission date |
Jan 24, 2019 |
| Last update date |
Jan 26, 2019 |
| Contact name |
Aditya Bhagwate |
| E-mail(s) |
bhagwate.adityavijay@mayo.edu
|
| 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) |
| GSE125577 |
Global Gene Expression Changes in Cholangiocytes Treated with TGF-beta |
|
| Relations |
| BioSample |
SAMN10805305 |
| SRA |
SRX5286889 |
