|
| Status |
Public on Oct 11, 2012 |
| Title |
CAKI2 ccRCC cells treated with DMSO |
| Sample type |
RNA |
| |
|
| Source name |
CAKI2 ccRCC cells treated with DMSO for 24H
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: CAKI2
treatment: DMSO
|
| Treatment protocol |
RCC cells were treated with 75 nM dose of A939572 SCD1 inhibitor for 24 hours (vs. DMSO control)
|
| Growth protocol |
RCC cell lines A498, ACHN, Caki1, and Caki2 (ATCC) were maintained in 5% FBS and 1% penicillin-streptomycin supplemented DMEM medium
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA from samples was extracted and LiCl precipitation purified using RNAqueous Midi Kit (Ambion) as per manufacturer protocol, and samples were shipped to Advanced Genomic Technology Center Gene Expression Core at the Mayo Clinic in Rochester, MN for further analysis. RNA quality was assessed by Agilent Bioanalyzer (Santa Clara, CA). Reverse transcription to second strand cDNA was generated from 100 ng of good quality total RNA.
|
| Label |
biotin
|
| Label protocol |
The RNA products were column-purified (Affymetrix) and then in vitro transcribed to generate biotin-labeled cRNA.
|
| |
|
| Hybridization protocol |
The IVT products were column-purified, fragmented, and hybridized onto Affymetrix U133 Plus 2.0 GeneChips® at 45º C for 16 h.
|
| Scan protocol |
Subsequent to hybridization, the arrays were washed and stained with streptavidin-phycoerythrin, then scanned in an Affymetrix GeneChip® Scanner 3000 (Santa Clara, CA). All control parameters were confirmed to be within normal ranges before normalization and data reduction was initiated.
|
| Data processing |
Raw data was processed by MAS.5 (Affymetrix) and analyzed using GeneSpring GX10
|
| |
|
| Submission date |
Oct 10, 2012 |
| Last update date |
Oct 11, 2012 |
| Contact name |
John A Copland |
| Organization name |
The Mayo Clinic, Jacksonville FL
|
| Department |
Cancer Research
|
| Lab |
Copland Lab
|
| Street address |
4500 San Pablo Rd
|
| City |
Jacksonville |
| State/province |
Florida |
| ZIP/Postal code |
32224 |
| Country |
USA |
| |
|
| Platform ID |
GPL570 |
| Series (1) |
| GSE41485 |
Expression data of A939572 SCD1 inhibitor treated ccRCC cells |
|
