|
| Status |
Public on Jan 01, 2013 |
| Title |
NCCIT-RA-rep1 |
| Sample type |
RNA |
| |
|
| Source name |
human pluripotent cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: NCCIT
cell type: human pluripotent cells
protocol: Retinoeic Acid
|
| Treatment protocol |
For differentiation RA was treated, For SNF5 level change we generated stable cell line for kd and transfected SNF5 for oe.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment and Quality control experiment performed
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
replicate 1
|
| Data processing |
The data were normalized using quantile normalization with R package lumi
|
| |
|
| Submission date |
Feb 17, 2012 |
| Last update date |
Jan 01, 2013 |
| Contact name |
jueng soo You |
| Organization name |
USC
|
| Department |
Norris Comprehensive Cancer Center
|
| Lab |
Peter Jones
|
| Street address |
1441 Eastlake Ave
|
| City |
LA |
| State/province |
CA |
| ZIP/Postal code |
90042 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE35909 |
Genome-wide analysis of human pluripotent cells after kd/oe of SNF5 |
| GSE36140 |
SNF5 is an essential executor of epigenetic regulation in pluripotency and differentiation |
|
