|
| Status |
Public on Aug 23, 2016 |
| Title |
African American primary proximal tubule cells K10222 |
| Sample type |
RNA |
| |
|
| Source name |
African American primary proximal tubule cells
|
| Organism |
Homo sapiens |
| Characteristics |
apol1 genotype: G0G0
cell type: primary proximal tubule cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from HEK293 Tet-on APOL1 G0, G1 and G2 cells using the QIAGEN Rneasy Mini Kit (QIAGEN Cat # 74104).
|
| Label |
Biotin
|
| Label protocol |
Approximately 250 ng of purified total RNA was processed to produce amplified and biotinylated sense-strand DNA targets.
|
| |
|
| Hybridization protocol |
Following fragmentation and labeling, 5.2 µg ss-cDNA was hybridized for 16 hr at 45 °C in hybridization oven, rotating at 60 rpm on GeneChip® Human Transcriptome Array 2.0. Cartridges were washed and stained using the GeneChip Fluidics Station according to standard Affymetrix operating procedures (Affymetrix®GeneChip® Fluidics Station 450 User's Guide AGCC (P/N 08-0295), the GeneChip® Expression Wash, Stain, and Scan User Manual for Cartridge Arrays (PN 702731)
|
| Scan protocol |
Cartridges were scanned using the GeneChip® Scanner 3000 7G according to the standard Affymetrix protocol (GeneChip® Expression Wash,Stain, and Scan User Manual for Cartridge Arrays (PN 702731) and the Affymetrix® GeneChip® Command Console® User Manual (P/N 702569)).
|
| Data processing |
Raw data were generated using TAC software and normalized by the RMA method. Log intensity distributions, pair-wise correlations and internal Affymerix controls were examined to evaluate hybridization quality.
|
| |
|
| Submission date |
Aug 22, 2016 |
| Last update date |
Aug 23, 2016 |
| Contact name |
Lijun Ma |
| E-mail(s) |
lima@wakehealth.edu
|
| Organization name |
Wake Forest School of Medicine
|
| Department |
Nephrology
|
| Street address |
1 Medical Center Blvd
|
| City |
Winston Salem |
| State/province |
NC |
| ZIP/Postal code |
27157 |
| Country |
USA |
| |
|
| Platform ID |
GPL17586 |
| Series (2) |
| GSE85920 |
APOL1 renal-risk variants induce mitochondrial dysfunction (Affymetrix 2) |
| GSE85921 |
APOL1 renal-risk variants induce mitochondrial dysfunction |
|
