|
| Status |
Public on Apr 22, 2016 |
| Title |
HK2 shPGC-1alpha - biological replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
HK2 cell line transduced with shPGC-1a
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HK2
cell type: proximal tubule epithelial
tissue: kidney
|
| Treatment protocol |
HK2 cells were transduced with lentivirus containing either pLKO.1-shGFP or pLKO.1 shPGC-1alpha
|
| Growth protocol |
HK2 cells were routinely cultured at 37C, 5% CO2 in DMEM + 10% FBS
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol (Life Technologies) and cleaned using RNEasy RNA cleanup kit (Qiagen) according to manufacturers protocols
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA was prepared from total cellular RNA according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
cRNA was hybridized and washed on an Affymetrix GeneChip Hybridization Oven 645 and Affymetrix GeneChip Fluidics Station 450, respectively
|
| Scan protocol |
HuGene 2.0 ST arrays were scanned using an Affymetrix GeneChip Scanner 3000 7G
|
| Description |
Gene expression data from HK2 cells transduced with indicated shRNA
|
| Data processing |
Raw data from .CEL files was normalized using RMA algorithm in Affymetrix Expression Console Software. Differentially expressed genes were identified using the Significant Analysis of Microarrays (SAM) in BRBArrayTools v2 software
|
| |
|
| Submission date |
May 27, 2014 |
| Last update date |
Apr 22, 2016 |
| Contact name |
Amato Giaccia |
| Organization name |
Stanford University
|
| Department |
Radiation Oncology
|
| Street address |
269 Campus Dr, CCSR South Rm 1250
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
| |
|
| Platform ID |
GPL16686 |
| Series (1) |
| GSE57994 |
Expression data from HK2 proximal tubule cells transduced with shPGC-1alpha compared to cells transduced with control shRNA |
|
