|
| Status |
Public on Mar 26, 2009 |
| Title |
PBMCs treated at the IC90 for 2 hours,replicate 6 |
| Sample type |
RNA |
| |
|
| Source name |
PBMCs treated at the IC90 for 2 hours,replicate 6
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: peripheral blood mononuclear cells
|
| Treatment protocol |
Cells from donors 1-6 were grown in vehicle, the IC90 (0.2 uM R547) and 3xIC90 (0.6 uM R547) dose of R547 for 2 or 24 hours. Donor 7 was used as the untreated zero hour time-point
|
| Growth protocol |
Human peripheral blood mononuclear cells (PBMCs) were separated from whole blood of seven healthy donors and cultured in six T75 flasks per donor at 10^7 cells per flask in 10% heat-inactivated FBS in RPMI medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cells using the Qiagen RNeasy Mini Kit
|
| Label |
biotin
|
| Label protocol |
RNA was converted into cDNA and cRNA according to the manufacturer’s recommendation and using manufacturer’s kits (Affymetrix, Santa Clara, CA). 15 ug of total RNA was converted to cDNA with the One-cycle cDNA Synthesis Kit with the addition of reagents from the Poly-A RNA Control Kit. cRNA was produced with the IVT Labeling Kit
|
| |
|
| Hybridization protocol |
Hybridization Mix contained, in addition to cRNA, reagents from the Hybridization Control Kit and Control Oligo B2. Staining and washing steps were performed as suggested by the manufacturer (Affymetrix, Santa Clara, CA).
|
| Scan protocol |
Each hybridized Affymetrix GeneChip array was scanned with a GeneChip Scanner 3000 7G (Agilent/Affymetrix).
|
| Description |
n/a
|
| Data processing |
Affymetrix gene expression microarray data was first background corrected and normalized via the RMA procedure followed by QQ normalization (R/Bioconductor)
|
| |
|
| Submission date |
Mar 25, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
James Rosinski |
| E-mail(s) |
jim.rosinski@gmail.com
|
| Organization name |
Roche
|
| Department |
In Silico Sciences
|
| Street address |
340 Kingsland St
|
| City |
Nutley |
| State/province |
NJ |
| ZIP/Postal code |
07110 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE15389 |
Peripheral blood mononuclear cells treated with a CDK inhibitor |
| GSE15396 |
Peripheral blood mononuclear, DU145, and HCT116 cells treated with a CDK inhibitor |
|
| Relations |
| Reanalyzed by |
GSE119087 |
