|
| Status |
Public on Oct 30, 2021 |
| Title |
rad1 - Radiation|No BBN |
| Sample type |
RNA |
| |
|
| Source name |
BBN bladder tumor
|
| Organism |
Mus musculus |
| Characteristics |
bbn: No
treatment: Radiation
tumor stage: Benign
|
| Treatment protocol |
Treatment with 100ul of TICE strain BCG (1x10^8 CFU) was initiated at week 12 and instilled into the bladder for 1 hour weekly for 3 weeks; Radiotherapy was administered as a single beam of external radiation at 15Gy at week 12.
|
| Growth protocol |
BBN was admistered in drinking water of mice ad libitum for 12 weeks resulting in the development of bladder cancer
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from fresh bladder tissue following sacrifice and total RNA was extracted using Qiagen RNeasy Kit
|
| Label |
biotin
|
| Label protocol |
100ug of RNA was labeled with Reporter Codeset and Capture Probset
|
| |
|
| Hybridization protocol |
Hybridization was carried out for 16 hours at 65degrees celsius in a thermal cycler
|
| Scan protocol |
Nanostring Mus musculus Myeloid Innate Immunity panel was run
|
| Description |
Twenty-six transcripts are reserved by the system for positive, negative, binding and purification controls.
|
| Data processing |
Raw data counts were normalized by first thresholding to exceed mean +1 standard deviation of negative controls, then scaled by a positive control normalization factor to correct for total counts and additionally scaling with a set of predefined housekeeping genes, as described in the NanoString user documentation.
|
| |
|
| Submission date |
Oct 28, 2021 |
| Last update date |
Oct 30, 2021 |
| Contact name |
Kara Lombardo |
| E-mail(s) |
klombardo@jhmi.edu
|
| Organization name |
Johns Hopkins Medical Institutions
|
| Department |
Urology
|
| Street address |
600 N Wolfe St
|
| City |
Baltimore |
| State/province |
Maryland |
| ZIP/Postal code |
21287 |
| Country |
USA |
| |
|
| Platform ID |
GPL25266 |
| Series (1) |
| GSE186737 |
BCG invokes superior STING-mediated innate immune response over radiotherapy in a carcinogen murine model of urothelial cancer |
|
