|
| Status |
Public on Jul 23, 2013 |
| Title |
Z138-anti-IgM-4h-rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Human cell line, 4h
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: Z-138
treatment: anti-IgM
dose: 10
unit: µg/ml
|
| Treatment protocol |
cells were treated for 4h
|
| Growth protocol |
standard procedures of cell culture according to the guidelines of suppliers
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on the array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
|
| Description |
Gene expression data from human cell lines
|
| Data processing |
The MAS5.0 normalized data for each unicate provided in the Sample table.
The data were further analyzed with In-house tools. We generated data sets consisting of "mean values" for the three replicates and "change factors" to the appropriate control experiment supplied in the GSE23394_Matrix_triplicates.xls file. Our in-house tool is called Race-A (Roche Affymetrix Chip Experiment - Analysis). The method is MAS5.0 and the scaling factor was adjusted for a scaling mean of 158. The CHGF=change factors are relative ratios (-1 for up regulation and +1 for down regulation to avoid the gap between -1 and +1), i.e. chgf=1 means double signal, chgf=-1 means half signal.
|
| |
|
| Submission date |
Aug 03, 2010 |
| Last update date |
Jul 23, 2013 |
| Contact name |
Helmut Burtscher |
| E-mail(s) |
helmut.burtscher@roche.com
|
| Organization name |
Roche Pharma
|
| Street address |
Nonnenwald 2
|
| City |
Penzberg |
| ZIP/Postal code |
82377 |
| Country |
Germany |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE23394 |
Expression data from human NHL cell lines treated with agonistic antibodies |
|
