|
| Status |
Public on Oct 16, 2021 |
| Title |
BM-MSCs/3D-3 |
| Sample type |
RNA |
| |
|
| Source name |
Organoid of huamn bone marrow mesenchymal stem cells-3
|
| Organism |
Homo sapiens |
| Characteristics |
strain: Bone marrow stem cells
|
| Treatment protocol |
rhTSG-6 treated in organoid spheroid by hepatic stellate cells
|
| Growth protocol |
Human primary hepatic stellate cells and human bone marrow stem cells were cultured in organoid expansion medium.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
The sense cDNA was then fragmented and biotin-labeled with TdT (terminal deoxynucleotidyl transferase) using the GeneChip WT Terminal labeling kit.
|
| |
|
| Hybridization protocol |
Approximately 5.5 μg of labeled DNA target was hybridized to the Affymetrix GeneChip Human Clariom S Array at 45°C for 16hour.
|
| Scan protocol |
Hybridized arrays were washed and stained on a GeneChip Fluidics Station 450 and scanned on a GCS3000 Scanner (Affymetrix).
|
| Description |
Gene expression data from organoid spheroids
|
| Data processing |
The data were summarized and normalized with robust multi-average (RMA) method implemented in Affymetrix® Power Tools(APT). We exported the result with gene level RMA analysis and perfomed the differentially expressed gene (DEG) analysis.
All data analysis and visualization of differentially expressed genes was conducted using R 3.0.2
|
| |
|
| Submission date |
Oct 16, 2018 |
| Last update date |
Oct 16, 2021 |
| Contact name |
Sihyung Wang |
| Organization name |
Pusan National University
|
| Department |
Integrated Biological Science
|
| Lab |
Stem Cell Biology
|
| Street address |
63-2 Pusandaehak-ro, Kumjeong-gu
|
| City |
Busan |
| ZIP/Postal code |
48222 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL23159 |
| Series (1) |
| GSE121298 |
Expression data of organoid derived from HSCs |
|
