|
| Status |
Public on Nov 26, 2009 |
| Title |
ATRA treated NB4 cells, 4 hours |
| Sample type |
RNA |
| |
|
| Source name |
ATRA treated NB4 cells, 4 hours
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: NB4
treatment: ATRA
time: 4 hours
|
| Treatment protocol |
NB4 cells were treated with E-6 M ATRA and harvested at 4, 12, 24, 48 and 72 hours, respectively.
|
| Growth protocol |
NB4 cells were cultured in RPMI 1640 medium supplemented with 10% fetal bovine serum (FBS) in a humidified atmosphere with 5% CO2 at 37°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the RNeasy Protect Midi Kit (Qiagen, Valencia, CA).
|
| Label |
biotin
|
| Label protocol |
5 ug of total RNA was used to prepare double-stranded cDNA with the one-cycle cDNA synthesis kit (Affymetrix, USA). The cDNA was used to synthesize biotin-labeled cRNA with the IVT kit (Affymetrix, USA). Biotin-labeled cRNA was fragmented according to affymetrix protocol.
|
| |
|
| Hybridization protocol |
Fragmented and biotin-labeled cRNA was hybridized to Affymetrix HGU133plus2 array chip using the Affymetrix hybridization kit. Arrays were incubated in 45°C hybridization oven for 16 hours,rotating at 60 rpm.
|
| Scan protocol |
Arrays were scanned on an Affymetrix Scanner 3000 7G.
|
| Description |
gene expression of ATRA treated NB4 cells, 4 hours
|
| Data processing |
Raw expression data were normalized using Robust Multi-array Averaging (RMA) with quantile normalization.
|
| |
|
| Submission date |
Nov 25, 2009 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Jiantao Shi |
| E-mail(s) |
jtshi@sibs.ac.cn
|
| Organization name |
Rui-Jin Hospital affiliated to Shanghai Jiao Tong University School of Medicine (RJH-SJTU-SM)
|
| Street address |
197 Ruijin Rd II
|
| City |
Shanghai |
| State/province |
Shanghai |
| ZIP/Postal code |
200025 |
| Country |
China |
| |
|
| Platform ID |
GPL570 |
| Series (2) |
| GSE19201 |
Expression profiling of ATRA treated NB4 cells |
| GSE19203 |
PML-RARa binding sites and their correlation with the gene expression in ATRA treated NB4 cells |
|
| Relations |
| Reanalyzed by |
GSE119087 |
