|
| Status |
Public on Feb 12, 2010 |
| Title |
4465171114_F |
| Sample type |
RNA |
| |
|
| Source name |
SNB19 human glioma cell line transduced with STAT3 shRNA lentivirus-vector for 72h
|
| Organism |
Homo sapiens |
| Characteristics |
cell type/line: SNB19
transduction: STAT3 shRNA (Sigma TRCN0000020843)
time: 72h
|
| Extracted molecule |
total RNA |
| Extraction protocol |
TRIZOL followed by MagMAX96 for microarrays total RNA isolation kit (Ambion)
|
| Label |
biotin
|
| Label protocol |
200 ng total RNA were processed according to Illumina TotalPrep RNA amplification kit (Ambion)
|
| |
|
| Hybridization protocol |
According to Illumina whole-genome gene expression direct hybridization assay guide
|
| Scan protocol |
The arrays were scanned using an iScan (Illumina). Images were segmented and quantified by BeadStudio (Illumina).
|
| Description |
Lentiviral-mediated expression of STAT3 shRNA in SNB19 human glioma cells for 72h. 200 ng of total RNA were hybridized in Illumina HumanHT12v3 expression arrays.
|
| Data processing |
BeadStudio-based background subtraction; followed by variance stabilization transformation and robust spline normalization as implemented in lumi R package (Bioconductor)
|
| |
|
| Submission date |
Nov 20, 2009 |
| Last update date |
Feb 11, 2010 |
| Contact name |
Mariano Javier Alvarez |
| Organization name |
Columbia University
|
| Department |
Systems Biology
|
| Lab |
Systems Biology
|
| Street address |
1130 St. Nicholas ave.
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10032 |
| Country |
USA |
| |
|
| Platform ID |
GPL6947 |
| Series (2) |
| GSE19114 |
A transcriptional module initiates and maintains mesenchymal transformation in brain tumors [human data] |
| GSE20281 |
The transcriptional network for mesenchymal transformation of brain tumours |
|
