|
| Status |
Public on Jun 30, 2011 |
| Title |
sh-JMJD1B_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
sh-JMJD1B
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: K562
genotype/variation: JMJD1B knock-down
|
| Treatment protocol |
Stable cells were treated 1 ug/ml doxyclcline for 48 h.
|
| Growth protocol |
K562 cells in RPMI1640 medium supplemented with 5 % fetal bovine serum (FBS) and 0.05 % antibiotics at 37 C in a 5 % CO2 atmosphere
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyser.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared from 0.55 ug total RNA using the Illumina TotalPrep RNA Amplification Kit (Ambion, Austin,TX).
|
| |
|
| Hybridization protocol |
Following fragmentation, 0.75 ug of cRNA were hybridized to the Illumina HumanHT-12 Expression Beadchip according to the protocols provided by the manufacturer.
|
| Scan protocol |
Arrays were scanned using the Illumina Bead Array Reader Confocal Scanner
|
| Description |
Tet-on system
|
| Data processing |
Array data export processing and analysis was performed using Illumina GenomeStudio v2009.2 Gene Expression Module v1.5.4.Array data were filtered by detection p-value < 0.05 (similar to signal to noise) and the selected probe signal values were transformed by logarithm and normalized by quantile method.
|
| |
|
| Submission date |
Jun 29, 2011 |
| Last update date |
May 17, 2012 |
| Contact name |
jiyoung kim |
| E-mail(s) |
gene5486@hanmail.net
|
| Organization name |
Chung-Ang University
|
| Street address |
Heusokdong
|
| City |
seoul |
| ZIP/Postal code |
156-756 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL10558 |
| Series (1) |
| GSE30294 |
JMJD1B target gene screening :JMJD1B is the H3K9 demethylase involved in transcriptional activation of Lmo2 in leukemia |
|
