|
| Status |
Public on Jul 20, 2010 |
| Title |
Syndecan-1 overexpressing cells 1 |
| Sample type |
RNA |
| |
|
| Source name |
STAV-AB malignant mesothelioma cells
|
| Organism |
Homo sapiens |
| Characteristics |
gene modulation status: syndecan-1 overexpressing
|
| Growth protocol |
The STAV-AB malignant mesothelioma cells stably overexpressing full-length syndecan-1, or the EGFP vector were cultured for about 36 hours.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from sub-confluent cell cultures, using the High Pure RNA isolation Kit (Roche, Mannheim, Germany), with optional on-column DNase1 digestion, according to the supplied protocol.
|
| Label |
biotin
|
| Label protocol |
Total RNA were amplified and labeled using the Whole Transcript (WT) Sense Target Labeling Protocol.
|
| |
|
| Hybridization protocol |
From non-degraded high-quality total RNA we prepared and hybridized biotinylated complementary RNA to Gene 1.0 ST Arrays, and then washed, stained and scanned slides using standardized protocols (Affymetrix Inc., Santa Clara, CA).
|
| Scan protocol |
We used standardized Affymetrix protocols (Affymetrix Inc., Santa Clara, CA).
|
| Description |
-
|
| Data processing |
Subsequent data analyses were performed using the Affymetrix Expression Console (version 1.1). The processing methods were: Summarization: PLIER, Background Correction: PM-GCBG, Normalization: Global Median.
|
| |
|
| Submission date |
Apr 20, 2010 |
| Last update date |
Jun 07, 2010 |
| Contact name |
Fang Zong |
| E-mail(s) |
[email protected]
|
| Organization name |
Karolinska
|
| Department |
LabMed
|
| Street address |
F46, Huddinge university hospital
|
| City |
Stockholm |
| ZIP/Postal code |
SE-14186 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE21401 |
Affymetrix microarray for gene expression patterns influenced by syndecan-1 overexpression in malignant mesothelioma STAV-AB cells |
|
