|
| Status |
Public on Dec 31, 2015 |
| Title |
siRNA against Sat III transfection, replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
HEK293T cells, siRNA against Sat III, untreated
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293T
sirna: against Sat III
treatment: none
|
| Treatment protocol |
Heat shocks were performed for 1 h at 42 °C by submersion in a water bath. Recovery was for 6 h.
|
| Growth protocol |
Human HEK293T cells were cultured in Dulbecco's Modified Eagle's medium. The media were supplemented with 10% fetal calf serum, 2 mM L-glutamine and antibiotics (penicillin and streptomycin), and the cells were cultured in a humidified 5% CO2 atmosphere at 37°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from HEK293T cells using the RNeasy kit (Qiagen).
|
| Label |
Biotin
|
| Label protocol |
To synthesize the biotinylated cRNA, 300 ng of total RNA was amplified using Ambion's Illumina TotalPrep RNA Amplification kit (cat #AMIL1791).
|
| |
|
| Hybridization protocol |
From each sample, 750 ng cRNA was hybridized to Illumina's HumanHT-12 Expression BeadChip, version 3 (cat no BD-103-0203) at 58°C overnight (19 h) according to Illumina Whole-Genome Gene Expression Direct Hybridization protocol, revision A.
|
| Scan protocol |
The chips were scanned with Illumina BeadArray Reader, BeadScan software version 3.5, and numerical results were extracted with Illumina's GenomeStudio v1.0 software without any normalization.
|
| Description |
siRNA III Control 1
Replicate 1
|
| Data processing |
The gene expression microarray data was analyzed using R and Bioconductor softwares. The data was quantile normalized.
The Sample data table and non-normalized data matrix do not include values for the control probes.
|
| |
|
| Submission date |
Jun 12, 2014 |
| Last update date |
Dec 31, 2015 |
| Contact name |
Lea Sistonen |
| Organization name |
Åbo Akademi
|
| Department |
Department of Biosciences
|
| Street address |
Tykistökatu 6 B
|
| City |
Turku |
| ZIP/Postal code |
20520 |
| Country |
Finland |
| |
|
| Platform ID |
GPL6947 |
| Series (1) |
| GSE58439 |
Long non-coding Satellite III RNAs link the heat shock response and cell proliferation |
|
