|
| Status |
Public on Jul 30, 2007 |
| Title |
HMEC ox-PAPC 20 mcg/ml 1432059026_C |
| Sample type |
RNA |
| |
|
| Source name |
HMEC
|
| Organism |
Homo sapiens |
| Characteristics |
Confluent HMEC in 6-well plates were treated in triplicate by ox-PAPC 20 mcg/ml for 4 hours. Cells were harvested and cytoplasmic RNA was isolated by RNAeasykit (Qiagen) and analyzed on an Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA) to assess RNA integrity. Biotin-labeled cRNA was synthesized by the Ambion Total prep RNA amplification kit. cRNA was quantified and normalized to 77 ng/mcl, and then 850 ng was hybridized to Beadchips (Beadchip 8X1 from Illumina, Inc. San Diego, CA) that contains probes for ~23,000 transcripts. The hybridized Beadchips were scanned by Illumina BeadScan confocal scanner and analyzed by Illumina's BeadStudio version 1.5.1.3. cRNA synthesis, hybridization and scanning was performed at the Southern California Genotyping Consortium's Illumina BeadLab located at UCLA. The microarray data was normalized and analyzed by Illumina Inc. BeadStudio software, version 1.5.0.34 (Illumina, Inc. San Diego, CA)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
cytoplasmic RNA was isolated by RNAeasykit (Qiagen) and analyzed on an Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA) to assess RNA integrity.
|
| Label |
Biotin Streptavidin-Cy3
|
| Label protocol |
Biotin-labeled cRNA was synthesized by the Ambion Total prep RNA amplification kit. cRNA was quantified and normalized to 77 ng/mcl
|
| |
|
| Hybridization protocol |
850 ng was hybridized to Beadchips (Beadchip 8X1 from Illumina, Inc. San Diego, CA) that contains probes for ~23,000 transcripts.
|
| Scan protocol |
The hybridized Beadchips were scanned by Illumina BeadScan confocal scanner and analyzed by Illumina's BeadStudio version 1.5.1.3. cRNA synthesis, hybridization and scanning was performed at the Southern California Genotyping Consortium's Illumina BeadLab located at UCLA.
|
| Description |
Replicate of HMEC ox-PAPC 20 mcg/ml
|
| Data processing |
The data were analyzed with Illumina Inc. BeadStudio version 1.5.0.34 and normalized by rank invariant method.
|
| |
|
| Submission date |
Dec 20, 2006 |
| Last update date |
Jul 30, 2007 |
| Contact name |
Leslie Ingram-drake |
| E-mail(s) |
[email protected]
|
| Phone |
310-794-9036
|
| Fax |
310-794-7345
|
| URL |
http://www.mednet.ucla.edu
|
| Organization name |
UCLA
|
| Department |
Medicine/MIMG/Human Genetics
|
| Street address |
47-123 CHS
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095-1359 |
| Country |
USA |
| |
|
| Platform ID |
GPL2700 |
| Series (1) |
| GSE6584 |
HMEC nine-condition expression profiling |
|
