|
| Status |
Public on Aug 30, 2023 |
| Title |
3_SBI_2 |
| Sample type |
RNA |
| |
|
| Source name |
Sprague Dawley, 3 days after simulated birth injury
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Sprague Dawley
tissue: pubocaudalis rat skeletal muscle
condition: 3 days after simulated birth injury
|
| Treatment protocol |
Simulated birth injury, saline or SKM injection as specified
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Pubocaudalis muscle was harvested, submerged in RNAlater and stored at -80C. Samples were then thawed and RNA was isolated with RNAeasy Fibrous Tissue Mini Kit.
|
| Label |
Capture ProbeSet
|
| Label protocol |
RNA concentration was measured using a Qubit 3.0 Fluorometer with a Qubit™ RNA HS Assay kit. The hybridization buffer (70 µl) was then mixed with the Custom Reporter CodeSet solution, and 8 µl of this master mix was then added separately to 50-100 ng of RNA per tissue sample, and RNA-free water up to 13 µl total. Then, 2 µl of Capture ProbeSet was added to the mixture, thoroughly mixed and placed on a thermocycler at 65°C for 16-48 hours and then maintained at 4°C for less than 24 hours.
|
| |
|
| Hybridization protocol |
Using a two-step magnetic beads purification, probe excess was removed in PrepStation and target/probe complexes were bound on the cartridge.
|
| Scan protocol |
Nanostring nCounter Digital Analyzer processed digital barcode reads.
|
| Data processing |
Barcode reads were analyzed by nSolver Analysis Software 4.0 and differential expression analysis was done with a custom R script.
|
| |
|
| Submission date |
Jul 11, 2023 |
| Last update date |
Aug 30, 2023 |
| Contact name |
Pamela Duran |
| E-mail(s) |
paduran@ucsd.edu
|
| Organization name |
University of California, San Diego
|
| Street address |
2880 Torrey Pines Scenic Dr
|
| City |
La Jolla |
| ZIP/Postal code |
92037 |
| Country |
USA |
| |
|
| Platform ID |
GPL33563 |
| Series (1) |
| GSE237062 |
Pelvic floor muscle response after simulated birth injury and mechanisms of a skeletal muscle-derived ECM hydrogel (SKM) |
|
