|
| Status |
Public on Jul 01, 2012 |
| Title |
A2008 |
| Sample type |
RNA |
| |
|
| Source name |
A2008 cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: A2008
cell type: ovarian cancer cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Samples are processed in parallel in 96-well plates to minimize potential variation. Reaction purification is achieved using magnetic binding beads for cDNA and Qiagen RNeasy kits for cRNA purification.
|
| Label |
Biotin
|
| Label protocol |
The final in vitro transcription incorporates biotin moieties that are later labeled with phycoerythrin. After amplification, samples are put through a controlled fragmentation to improve hybridization sensitivity and consistency. The labeled molecules are biotinylated-cRNA.
|
| |
|
| Hybridization protocol |
GeneChip microarrays are loaded with the fragmented target sample/hybridization buffer mix using standard manual techniques. Arrays are hybridized for 18 hours at 45C with vigorous mixing. Unbound sample is removed and staining is accomplished through the binding of streptavidin conjugated phycoerythrin to the hybridized target. Excess label is removed. Washing and staining steps are performed by the Affymetrix FS450 fluidics station using standard protocols.
|
| Scan protocol |
Arrays are scanned using a GeneChip Scanner 3000 7G with a 48 array autoloader. The scanner maintains the optimal temperature for the arrays prior to and during scanning.
|
| Description |
Baseline profiling of A2008 cells
|
| Data processing |
Data were processed using the RMA algorithm (http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=PubMed&list_uids=12582260).
|
| |
|
| Submission date |
Dec 21, 2011 |
| Last update date |
Jul 01, 2012 |
| Contact name |
Steven Eschrich |
| E-mail(s) |
Steven.Eschrich@moffitt.org
|
| Organization name |
Moffitt Cancer Center
|
| Department |
Biostatistics & Bioinformatics
|
| Street address |
12902 Magnolia Drive
|
| City |
Tampa |
| State/province |
FL |
| ZIP/Postal code |
33612 |
| Country |
USA |
| |
|
| Platform ID |
GPL15048 |
| Series (1) |
| GSE34615 |
Ovarian cancer cell lines [Baseline profiling] |
|
