|
| Status |
Public on Jan 20, 2009 |
| Title |
EScell shGFP rep1 |
| Sample type |
RNA |
| |
|
| Source name |
mouse E14Tg2 Embryonic Stem Cells
|
| Organism |
Mus musculus |
| Characteristics |
mES were transfected with GFP shRNA (control) pLKO-based constructs (Open Biosystems), selected with puromycin for 72 hours to remove non-transfectants, and harvested at 96hours for microarray analysis
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction was performed using a Qiagen RNeasy mini kit following the manufacturer's directions.
|
| Label |
biotin
|
| Label protocol |
Labeling was performed using Affymetrix's IVT labeling kit following manufacturer's directions.
|
| |
|
| Hybridization protocol |
20 micrograms of biotin labeled RNA was fragmented to ~100 bp fragments by incubating in a buffer containing 200 mM Tris-Acetate pH 8.2, 500 mM Potassium Acetate and 500 Magnesium Acetate for 35 minutes at 95C. Fragments were hybridized to Affymetrix 430 2.0 chips for 16 hrs, washed and stained on an Affymetrix fluidics station.
|
| Scan protocol |
Scanning was performed with the Affymetrix GeneChip scanner using default settings.
|
| Description |
None
|
| Data processing |
Raw signal values were normalized using RMA.
|
| |
|
| Submission date |
Jan 07, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Raja Jothi |
| E-mail(s) |
jothi@mail.nih.gov
|
| Organization name |
National Institutes of Health
|
| Department |
National Institute of Environmental Health Sciences
|
| Lab |
Systems Biology
|
| Street address |
111 TW Alexander Drive; A314
|
| City |
RTP |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE14344 |
esBAF is an essential component of the core pluripotency transcriptional network |
|
| Relations |
| Reanalyzed by |
GSE119085 |
