|
| Status |
Public on Oct 15, 2011 |
| Title |
Renal medulla of hypertensive, m34 |
| Sample type |
RNA |
| |
|
| Source name |
Renal medulla of hypertensive male
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
tissue: renal medulla
blood pressure: hypertensive
|
| Treatment protocol |
Tissue was transferred into containers with RNAlater (Ambion) and preserved at 70°C before mRNA extraction.
|
| Growth protocol |
Approximately 1 cm3 of tissue from the healthy (unaffected by cancer) pole of the kidney was obtained immediately after surgery.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNeasy kit (Qiagen) was used for extraction of total RNA according to the manufacturer's instructions. Medulla and cortex were separated and individual RNA was obtained for each of them.
|
| Label |
biotin
|
| Label protocol |
100ng of total RNA was prepared for hybridization according to the standard Affymetrix protocol (GeneChip Whole Transcript (WT) Sense Target Labeling Assay Manual, version 4, Affymetrix).
|
| |
|
| Hybridization protocol |
After fragmentation, ssDNA was hybridized to GeneChip Human Gene 1.0 ST Arrays for 17 hr at 45°C. Chips were washed and stained in the Affymetrix GeneChip Fluidics Stations 450. For all of these steps, the GeneChip Hybridization, Wash, and Stain Kit (Affymetrix) was used according to manufacturer’s recommendations (GeneChip Whole Transcript (WT) Sense Target Labelling Assay Manual, version 4, Affymetrix).
|
| Scan protocol |
The chips were scanned using the GeneChip Scanner 3000 7G 4C (Affymetrix) according to the manufacturer’s recommendations (GeneChip Whole Transcript (WT) Sense Target Labelling Assay Manual, version 4, Affymetrix).
|
| Description |
Gene expression from male hypertensive patient.
|
| Data processing |
The samples were individually normalized using robust-multi-array analysis (RMA) in the R application (version 2.11.1). Differentially expressed genes were identified using the moderated two-sample t-test in the Limma package.
|
| |
|
| Submission date |
Apr 04, 2011 |
| Last update date |
Oct 15, 2011 |
| Contact name |
Prof.Brian J Morris |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Sydney
|
| Department |
Physiology
|
| Lab |
Basic & Clinical Genomics Lab
|
| Street address |
Anderson Stuart Building, room N452, University of Sydney
|
| City |
Sydney |
| State/province |
NSW |
| ZIP/Postal code |
2006 |
| Country |
Australia |
| |
|
| Platform ID |
GPL6244 |
| Series (2) |
| GSE28260 |
Renal cortex and medulla microRNA and mRNA expression differences between hypertensive and normotensive patients |
| GSE28360 |
Renal medulla expression differences between hypertensive and normotensive patients |
|
