|
| Status |
Public on Jan 08, 2024 |
| Title |
HepG2 cell Berberine_2 |
| Sample type |
RNA |
| |
|
| Source name |
HepG2 cells withberberine (26.95 uM) treatment for 24 hours
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HepG2
cell type: hepatocellular carcinoma
|
| Treatment protocol |
HepG2 cells with/without berberine (26.95 uM) treatment for 24 hours
|
| Growth protocol |
DMEM+10% FBS+1% PS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with RNeasy Mini Kit (Qiagen, Cat No./ID: 74104)
|
| Label |
Cy5
|
| Label protocol |
5 μg Cy5-labeled aRNA
|
| |
|
| Hybridization protocol |
Phalanx OneArray Plus Protocol 1. Hybridized to a mouse Oligo Microarray (Phalanx Mouse OneArray v2, Phalanx Biotech) according to the manufacturer's protocol. 2. Fluorescent targets were hybridized to the Mouse Whole Genome OneArray® with Phalanx hybridization buffer using Phalanx Hybridization System. After 16 hrs hybridization, non-specific binding targets were washed away.
|
| Scan protocol |
The slides scanned using a DNA Microarray Scanner (Model G2505C, Agilent Technologies). The Cy5 fluorescent intensities of each spot were analyzed by GenePix 4.1 software (Molecular Devices).
|
| Description |
Gene expression after MDI-induced differentiation and berberine (13.47 uM) treatment for 48 hours
|
| Data processing |
identify differentially expressed genes are established at log2 |fold change| ≧ 1 and P-value < 0.05 Each single sample was at least performed twice in terms of technical or biological replicates under the reproducibility more than 0.975. The signal intensity was loaded into Rosetta Resolver System® (Rosetta Biosoftware, USA) to do data preprocessing and apply to median centering normalization. The errors of the sample were estimated by using the error-weighted approach at the same time. Both of fold change and p-value for pair-wise sample comparison were calculated for evaluating differentially expressed genes. The criteria with fold change ≥ 2 or ≤ -2 and p-value < 0.05 are strongly recommended for further analysis.
|
| |
|
| Submission date |
Jan 11, 2021 |
| Last update date |
Jan 08, 2024 |
| Contact name |
Jiawen SHOU |
| E-mail(s) |
[email protected]
|
| Organization name |
the Chinese University of Hong Kong
|
| Street address |
Shatin
|
| City |
Hong Kong |
| ZIP/Postal code |
852852 |
| Country |
Hong Kong |
| |
|
| Platform ID |
GPL13692 |
| Series (1) |
| GSE164561 |
The effect of berberine upon HepG2 cell viability |
|
