|
| Status |
Public on Jun 26, 2010 |
| Title |
NSC-pcDNA-exp1-dff-3 |
| Sample type |
RNA |
| |
|
| Source name |
PNET cell line, pcDNA
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: PNET
cell type: neural stem cell
miRNA: none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Standard Trizol extraction.
|
| Label |
biotin
|
| Label protocol |
Following manufacturer's instructions, 250 ng total RNA was used for cRNA in vitro transcription and labeling with the Illumina TotalPrep RNA Amplication Kit using biotinylated-UTP (Ambion, Austin, TX).
|
| |
|
| Hybridization protocol |
Hybridization is carried out in Illumina Intellihyb chambers at 58 °C (Whole-Genome Gene Expression with IntelliHyb Seal System Manual, 2006, Illumina).
|
| Scan protocol |
Following hybridization, washing, and staining with streptavidin-Cy3, the chips were scanned using an Illumina BeadArray reader.
|
| Description |
Experiment 1
Replicate 3
NSC pcDNA-r3
|
| Data processing |
Data analyses were performed with Illumina BeadStudio (v3.4.0) and Bioconductor packages (v2.3) in the R programming environment (v 2.7.1). The image data were analyzed using the BeadStudio, the output files of which were imported into the R using the lumi package (v1.8.3). Probe set signal intensities were averaged. Expression profiles were then log2 transformed and quantile normalized for ownstream analyses.
|
| |
|
| Submission date |
Dec 07, 2010 |
| Last update date |
Dec 07, 2010 |
| Contact name |
David J. H. Shih |
| E-mail(s) |
david.shih@utoronto.ca
|
| Phone |
(416) 813-7654
|
| Organization name |
Hospital for Sick Children
|
| Department |
Developmental and Stem Cell Biology
|
| Lab |
Peter Gilgan Centre for Research and Learning
|
| Street address |
686 Bay St
|
| City |
Toronto |
| State/province |
ON |
| ZIP/Postal code |
M5G 0A4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL6884 |
| Series (1) |
| GSE16988 |
Expression profile of cell lines overexpressing miR-520g |
|
