|
| Status |
Public on May 01, 2023 |
| Title |
WAT_CKD_6 |
| Sample type |
RNA |
| |
|
| Source name |
Subcutaneous white adipose tissue
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
renal function: CKD
|
| Treatment protocol |
Surgical biopsies of subcutaneous white adipose tissue were snap frozen in liquid nitrogen and stored at -80°C until analysis
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA were extracted using Mirvana isolation Kit (ambion ref 1560) according to the manufacturer's recommendations
|
| Label |
Cy3
|
| Label protocol |
200ng of total RNA were labelled with cy3 using Low Input Quick Amp labeling One color : Cy3 kit from Agilent (ref : 5190-2305) following manufacturer's instructions
|
| |
|
| Hybridization protocol |
1.65µg of cRNA were hybridized for 17 hr at 65C. GeneChips were washed and scanned.
|
| Scan protocol |
Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner using one color scan setting for 4x44k array slides.
|
| Description |
Surgical biopsy of abdominal subcutaneous adipose tissue
|
| Data processing |
The scanned images were analyzed with Feature Extraction Software 11.5.1.1 (Agilent) using default parameters . Data treatment was performed with bioconductor and Limma library. Background substraction was performed using the Normexp correction with offset =50. Quantile normalization was then applied. Features flagged in Feature Extraction as control, as Feature Non-uniform outliers, saturating or too weak were excluded.
|
| |
|
| Submission date |
May 05, 2017 |
| Last update date |
May 01, 2023 |
| Contact name |
Christophe O Soulage |
| E-mail(s) |
christophe.soulage@insa-lyon.fr
|
| Organization name |
INSA-Lyon
|
| Department |
BioSciences
|
| Lab |
INSERM U1060 CarMeN Lab
|
| Street address |
15 avenue Jean Capelle
|
| City |
VILLEURBANNE |
| ZIP/Postal code |
69621 |
| Country |
France |
| |
|
| Platform ID |
GPL13497 |
| Series (1) |
| GSE98603 |
Characterization of subcutaneous white adipose tissue gene expression profile in control and chronic kidney disease patients |
|
