|
| Status |
Public on Jul 28, 2018 |
| Title |
A498 DGAT1/2 shRNA xenograft, 200mg/kg doxycycline chow, 5 days, biol repl 3 |
| Sample type |
RNA |
| |
|
| Source name |
A498 DGAT1/2 shRNA tumor from mouse treated with 200mg/kg doxycycline chow
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: A498 xenograft tumor
cell type: Clear cell renal cell carcinoma (ccRCC)
treatment: doxycycline
genotype/variation: DGAT1/2 knockdown
|
| Treatment protocol |
Mice were fed either control or doxycycline chow for 5 days ad lititum
|
| Growth protocol |
After subcutaneous injection of 5e6 A498 cells in NIH-III mice, tumors were allowed to grow to 300mm3 and were then randomly assigned to the two treatment groups
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA extraction was performed with RNEasy columns according to the manufacturer's instructions
|
| Label |
biotin
|
| Label protocol |
250ng of total RNA was converted to biotinylated cDNA using standard protocols used by the Molecular Profiling Core at the University of Pennsylvania
|
| |
|
| Hybridization protocol |
Five and a half micrograms of labeled cDNA were added to Affymetrix hybridization cocktails, heated at 99ºC for 5 min and hybridized for 16 h at 45ºC to Human Transcriptome 2.0 ST GeneChips (Affymetrix Inc., Santa Clara CA) using the GeneChip Hybridization oven 645. The microarrays were then washed at low (6X SSPE) and high (100mM MES, 0.1M NaCl) stringency and stained with streptavidin-phycoerythrin. Fluorescence was amplified by adding biotinylated anti-streptavidin and an additional aliquot of streptavidin-phycoerythrin stain.
|
| Scan protocol |
A GeneChip 3000 7G scanner was used to collect fluorescence signal.
|
| Description |
Gene expression data from A498 cells following DGAT knockdown
|
| Data processing |
RMA-sst was applied using Affymetroix Transcriptome Analysis Console (TAC) with default settings
|
| |
|
| Submission date |
Jul 27, 2018 |
| Last update date |
Jul 28, 2018 |
| Contact name |
Daniel Ackerman |
| E-mail(s) |
[email protected]
|
| Phone |
2155739755
|
| Organization name |
University of Pennsylvania
|
| Street address |
421 Curie Blvd, BRB II/III, Rm 646
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL17586 |
| Series (1) |
| GSE117774 |
Effect of DGAT knockdown on gene expression in A498 xenograft tumors |
|
