|
| Status |
Public on Aug 31, 2020 |
| Title |
shear stress-stimulated rat collateral tissue replicate 3 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
collateral blood vessel tissue shunt (fluid shear stress-stimulated)
|
| Organism |
Rattus norvegicus |
| Characteristics |
gender: male
strain: Spraque-Dawley
tissue: collateral blood vessel tissue shunt (fluid shear stress- stimulated)
|
| Treatment protocol |
Single femoral artery ligation and arteriovenous shunt to maximize fluid shear stress in collateral arteries. Contralateral leg was sham-operated and served as control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol following manufacturer's instructions
|
| Label |
AF665
|
| Label protocol |
The samples were directly labeled using Ncode Rapid labeling System (#MIRLSRPD-20) and arrayed on the multi-species miRNA Microarray V2 (#MIRA2-05)
|
| |
|
| Channel 2 |
| Source name |
collateral blood vessel tissue shunt (fluid shear stress-stimulated)
|
| Organism |
Rattus norvegicus |
| Characteristics |
gender: male
strain: Spraque-Dawley
tissue: collateral blood vessel tissue shunt (fluid shear stress- stimulated)
|
| Treatment protocol |
Single femoral artery ligation and arteriovenous shunt to maximize fluid shear stress in collateral arteries. Contralateral leg was sham-operated and served as control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol following manufacturer's instructions
|
| Label |
AF546
|
| Label protocol |
The samples were directly labeled using Ncode Rapid labeling System (#MIRLSRPD-20) and arrayed on the multi-species miRNA Microarray V2 (#MIRA2-05)
|
| |
|
| |
| Hybridization protocol |
Two differentially labelled reactions were combined into one tube and loaded onto the array
|
| Scan protocol |
Arrays were scanned using a GenePix 400B microarray scanner (Molecular Devices)
|
| Description |
Sample name: Psk 30 sk
Biological replicate 3 of 5. Collateral tissue Psk 30 sk (AF665) and collateral tissue Psk 31 sk (AF546)
|
| Data processing |
The annotated data were normalized using a Latin Squares algorithm by the NCode™ Profiler data analysis software
The pairwise median fold-change, P-value, tissue rank, and test statistics for the miRNAs are listed in the Analyzed Data File. The values for each individual miRNA probe sequence printed in triplicate on the array are listed as separate rows in the analysis file. The miRNAs with p-values <0.05 for two out of the three spots on the array are considered statistically significant. A list of the statistically significant miRNAs for follow-up studies is provided on the second sheet in the Analyzed Data workbook. The replicate values for median fold-change, P-value, tissue rank, and test statistics for each of the miRNAs collapsed into one value are listed in the Collapsed Data File.
Data analysis used only the miRNA_IDs annotated in NCode Multi-Species miRNA Microarray V2.
|
| |
|
| Submission date |
Sep 04, 2018 |
| Last update date |
Sep 01, 2020 |
| Contact name |
Kerstin Troidl |
| E-mail(s) |
kerstin.troidl@mpi-bn.mpg.de
|
| Organization name |
Max-Planck-Institute for Heart and Lung Research
|
| Street address |
Ludwigstr. 43
|
| City |
Bad Nauheim |
| ZIP/Postal code |
61231 |
| Country |
Germany |
| |
|
| Platform ID |
GPL25527 |
| Series (1) |
| GSE119434 |
Microarray-based miRNA expression in fluid shear stress-stimulated collateral blood vessels |
|
