|
| Status |
Public on Jan 15, 2009 |
| Title |
Human embryonic kidney cells (HEK293) treated with epoxomicin for 6hr, replicate 3 |
| Sample type |
RNA |
| |
|
| Source name |
Human embryonic kidney cells (HEK293) treated with epoxomicin for 6hr
|
| Organism |
Homo sapiens |
| Characteristics |
HEK293 cells
|
| Treatment protocol |
1 uM epoxomicin is added to HEK293 cells and incubated for 1 and 6 hours before RNA extraction. RNA was extracted from cells without treatment at zero time point as control.
|
| Growth protocol |
HEK293 cells are maintained in DMEM supplemented with 10% fetal bovine serum in 3% oxygen, 5% carbon dioxide, 37 degrees Celsius humidified incubator.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from HEK293 cells using Qiagen RNeasy Mini Kit according to manufacturer’s instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol using Affymetrix’s IVT labeling kit following the manufacturer’s directions.
|
| |
|
| Hybridization protocol |
Fragmented RNA was hybridized to Affymetrix HG-U133 plus 2.0 chips for 16 hours, washed, stained on an Affymetrix fluidics station.
|
| Scan protocol |
Hybridized chips were scanned using Affymetrix genechip scanner 3000
|
| Description |
gene expression data from human embryonic kidney cells (cell culture) treated with epoxomicin for 6hr
|
| Data processing |
The data were first processed with GCOS1.4 using Affymetrix default analysis settings. The trimmed mean target intensity of each array was arbitrarily set to 1000. Intensities obtained in CHP file generated by GCOS were normalized using an adaptive variance-stabilizing quantile normalization (Munson, P.J., GeneLogic Workshop of Low Level Analysis of Affymetrix GeneChip Data, 2001, software available at http://abs.cit.nih.gov/geneexpression.html).
|
| |
|
| Submission date |
Jan 14, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Allen HK Chang |
| E-mail(s) |
changah@nhlbi.nih.gov
|
| Organization name |
NIH\NHLBI
|
| Lab |
Laboratory of Biochemistry
|
| Street address |
50 South Drive, Bldg.50, Rm.2347
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE14429 |
Alteration of gene expression profile in HEK293 cells treated with proteasome inhibitor epoxomicin |
|
| Relations |
| Reanalyzed by |
GSE119087 |
