|
Status |
Public on Jan 01, 2013 |
Title |
NCCIT-SNF5sh-rep1 |
Sample type |
RNA |
|
|
Source name |
human pluripotent cells
|
Organism |
Homo sapiens |
Characteristics |
cell line: NCCIT cell type: human pluripotent cells protocol: SNF5 shRNA infenction
|
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 |
|