|
| Status |
Public on Nov 24, 2021 |
| Title |
KO1 |
| Sample type |
RNA |
| |
|
| Source name |
CD45-tumor cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
genotype: Prdm1fl/flFoxP3YFP-Cre (KO)
tissue: Tumor
tumor stage: less than or equal to 1.5 cm3
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using a QIAshredder kit (QIAGEN) and an RNeasy Plus Micro Kit (QIAGEN) according to the manufacturer’s protocol.
|
| Label |
Nanostring
|
| Label protocol |
100 ng of purified RNA was added to 3 μL of Reporter CodeSet and 2 μL Capture ProbeSet using an nCounter master kit as recommended (NanoString Technologies)
|
| |
|
| Hybridization protocol |
Samples were processed on the NanoString nCounter Flex System per manufacturer instructions
|
| Scan protocol |
using the nCounter Mouse PanCancer Immune Profiling panel
|
| Description |
3 μL of Reporter CodeSet and 2 μL Capture ProbeSet
B1
|
| Data processing |
Within nSolver (4.0) the nCounter Advanced Analysis (version 2.0.134) was run using the raw data in order to predict the best housekeeping genes to use (based on the gnorm program). 17 housekeeping genes were used (discarded G6pdx, Polr1b, Polr2a). Differentially expressed genes were identified as genes with a p value of less than 0.05 versus the respective baseline control.
|
| |
|
| Submission date |
Jun 14, 2021 |
| Last update date |
Nov 24, 2021 |
| Contact name |
Jianmei Wu Leavenworth |
| E-mail(s) |
jleavenworth@uabmc.edu
|
| Organization name |
University of Alabama at Birmingham
|
| Department |
Neurosurgery, Microbiology
|
| Lab |
Leavenworth Lab, CHB130
|
| Street address |
1600 6th Ave South
|
| City |
Birmingham |
| State/province |
AL |
| ZIP/Postal code |
35233 |
| Country |
USA |
| |
|
| Platform ID |
GPL29428 |
| Series (2) |
| GSE178133 |
Gene analysis of tumor cells from mice with the Treg-specific deletion of Blimp1 compared to WT mice (NanoString Immune) |
| GSE178135 |
Treg cells and Treg-specific deletion of Blimp1 |
|
