|
| Status |
Public on Mar 21, 2016 |
| Title |
Wapal shRNA2 Rep 2 |
| Sample type |
RNA |
| |
|
| Source name |
Wapal shRNA2
|
| Organism |
Mus musculus |
| Characteristics |
cell type: ESC
genotype/variation: Wapal shRNA2
|
| Treatment protocol |
Adherent cells were infected with lentivirus for 48 hrs in the presence of polybrene 10 mcg/mL. Media was then changed to ES cell media with LIF and puromycin (4 mcg/mL). Cells were then cultured for 48hrs post infection.
|
| Growth protocol |
CJ9 (129svj derived ESCs) were grown under standard conditions prior to infection
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were lysed with Trizol and total RNA collected. Total RNA was further purified by the Qiagen RNA isolation system per manufacturer's protocol.
|
| Label |
Biotin
|
| Label protocol |
The cDNA was synthesized, labeled, fragmented, and hybridized to an array in accordance to the Affymetrix GeneChip expression analysis technical manual
|
| |
|
| Hybridization protocol |
Per affymetrix manual
|
| Scan protocol |
After hybridization, arrays were washed and stained with Affymetrix fluidics protocol FS450_0001 and scanned with a 7G Affymetrix GeneChip Scanner LR15
|
| Data processing |
.gct and .res files were created by RMA normalization using GenePattern (https://www.broad.harvard.edu/cancer/software/genepattern/). These files (specifically the .gct) was used for downstream analysis by GSEA
|
| |
|
| Submission date |
Nov 14, 2014 |
| Last update date |
Mar 22, 2016 |
| Contact name |
Sridhar Rao |
| E-mail(s) |
sridhar.rao@bcw.edu
|
| Phone |
4149373841
|
| Organization name |
BloodCenter of Wisconsin
|
| Department |
Blood Research Institute
|
| Street address |
8727 Watertown Plank Road
|
| City |
Milwaukee |
| State/province |
WI |
| ZIP/Postal code |
53226 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (2) |
| GSE63291 |
The cohesin offloading factor Wapal is required for proper polycomb-mediated gene silencing [array] |
| GSE63325 |
The cohesin associated factor Wapal is required for proper polycomb-mediated gene silencing |
|
