|
| Status |
Public on Jul 03, 2018 |
| Title |
EDN, 1 |
| Sample type |
RNA |
| |
|
| Source name |
early diabetic nephropathy
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Kidney Cortical Tissue
disease: early diabetic nephropathy
|
| Treatment protocol |
Total RNA from flash-frozen kidney tissue was extracted exclusively from postmortem kidney cortical tissue. Pathologic staging of diabetic tissues was performed using the 2010 Renal Pathology Society classification system for diabetic kidney disease.9 From each postmortem nephrectomy sample more than 100 glomeruli were reviewed in tissue sections. Pathologic stages I-III diabetic kidney disease were considered as EDN and used in the study. Stage III kidneys were included since the renal function in these donors are preserved.
|
| Growth protocol |
Postmortem kidney from non-diabetic controls and EDN
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
Biotinylated ss-cDNA was prepared according to the standard Affymetrix protocol from 500 ng total RNA (GeneChipTM WT PLUS Reagent Kit Manual Target Preparation for GeneChipTM Whole Transcript (WT) Expression Arrays, 2017, Thermo Fisher).
|
| |
|
| Hybridization protocol |
Following fragmentation, 5.5 ug of ss-cDNA were hybridized for 16 hr at 45C on Human Transcriptome 2.0 GeneChip. GeneChips were washed and stained in the Affymetrix GeneChips Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneArray Scanner 3000.
|
| Description |
Gene expression data from kidney of patients with EDN
|
| Data processing |
The data were analyzed with Partek Genomics Suite using Partek default analysis settings and RMA as normalization method.
|
| |
|
| Submission date |
Feb 26, 2018 |
| Last update date |
Jul 04, 2018 |
| Contact name |
Towia A Libermann |
| E-mail(s) |
[email protected]
|
| Organization name |
Beth Israel Deaconess Medical Center
|
| Department |
Medicine
|
| Street address |
99 Brookline Ave.
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL17586 |
| Series (1) |
| GSE111154 |
RNA Expression data for early diabetic nephropathy (EDN) |
|
