|
| Status |
Public on Oct 26, 2017 |
| Title |
Ko 3h, biological replicate 2 |
| Sample type |
RNA |
| |
|
| Source name |
Ko_control
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HCC-1.2
cell type: hepatocarcinoma
|
| Treatment protocol |
3 hours 10µM erlotinib or solvent control
|
| Growth protocol |
HCC-1.2 cells were grown in DMEM at 37°C until 80% confluency
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted by Trizol according to manufacturer protocol and cleaned by DNAse set (Quiagen, Venlo, The Netherlands)
|
| Label |
biotin
|
| Label protocol |
100ng of total RNA were amplified and labeled using the Ambion Whole Transcript Expression Kit (Catalog Number 4411973, Ambion, Austin, TX) and Affymetix Genechip Whole Transcript Terminal Labeling Kit (Catalog Number 900670, Affymetrix, Santa Clara, CA)
|
| |
|
| Hybridization protocol |
Affymetrix GeneChip® Human Gene 1.0 ST arrays were washed, stained and scanned according to the protocol described in GeneChip® WT Terminal Labeling and Hybridization User Manual (Fluidics Protocol FS450_0007)
|
| Scan protocol |
Scanning was done on an Affymetrix GeneChip Scanner 3000 7G, software AGCC 3.1.
|
| Description |
solvent treated control cells
|
| Data processing |
Data were preprocessed using quantile normalization to account for latent batch effects and RMA to summarize probesets. Analysis was performed using R and Biconductor.
|
| |
|
| Submission date |
Apr 02, 2015 |
| Last update date |
Oct 26, 2017 |
| Contact name |
Florian Leopold Klinglmueller |
| E-mail(s) |
[email protected]
|
| Organization name |
Medizinische Universitaet Wien
|
| Department |
Medizinische Statistik und Informatik
|
| Street address |
Spitalgasse 23
|
| City |
Vienna |
| ZIP/Postal code |
1090 |
| Country |
Austria |
| |
|
| Platform ID |
GPL15034 |
| Series (1) |
| GSE67545 |
Expression data from human hepatocarcinoma HCC-1.2 cell line treated by erlotinib |
|
