|
| Status |
Public on Apr 06, 2012 |
| Title |
shSOX2_5 |
| Sample type |
RNA |
| |
|
| Source name |
H1 hESCs, SOX2 shRNA
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: H1
cell type: human embyronic stem cells (hESCs)
treatment: SOX2 shRNA
time: day 4
|
| Treatment protocol |
Cells were transduced with H1P, shNANOG, shOCT4 or shSOX2 lentivirus in the presence of polybrene for 8 days.
|
| Growth protocol |
Cells were cultured on Matrigel-coated plates in mTeSR medium (Stem Cell Technologies).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using Trizol, treated with DNase I (Ambion) to remove genomic DNA, extracted with phenol:chloroform (1:1), precipitated and diluted in water.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Ambion Illumina TotalPrep RNA Amplification Kit according to the manufacturer's protocol.
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol.
|
| Scan protocol |
Standard Illumina scanning protocol.
|
| Description |
SOX2 shRNA knockdown day 4.
|
| Data processing |
The data were normalized using quantile normalization.
|
| |
|
| Submission date |
Jan 06, 2012 |
| Last update date |
May 17, 2012 |
| Contact name |
Natalia Ivanova |
| E-mail(s) |
[email protected]
|
| Organization name |
Yale
|
| Department |
genetics
|
| Lab |
Ivanova
|
| Street address |
10 Amistad
|
| City |
New haven |
| State/province |
ct |
| ZIP/Postal code |
06512 |
| Country |
USA |
| |
|
| Platform ID |
GPL10558 |
| Series (2) |
| GSE34904 |
NANOG-OCT4-SOX2 Regulatory Module in Human Embryonic Stem Cells (dataset 1) |
| GSE34921 |
NANOG-OCT4-SOX2 Regulatory Module in Human Embryonic Stem Cells |
|
