|
| Status |
Public on Oct 03, 2023 |
| Title |
NonTreated_GFPpos, KT13 |
| Sample type |
SRA |
| |
|
| Source name |
NonTreated_GFPpos
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Tumor infiltrating lymphocytes
sorted cell type: CD8+ T cells
genotype: GFP positive
treatment: No aPDL1 treatment
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted from cells using RNAeasy (Qiagen) kit as per manufacturers instructions
Quant-seq 3′ mRNA-seq Library Prep Kit for Illumina (Lexogen) as per manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Illumina Casava1.8.2 software used for basecalling.
The RNA sequencing reads were trimmed using cutadapt(v1.7) to remove poor quality ends.
Read data was then aligned using Hisat2 to the mouse reference genome (mm10)
Read counting was performed with featureCounts from the subread package (v1.6.4)
Assembly: mm10
Supplementary files format and content: count file generated by featureCounts
|
| |
|
| Submission date |
Apr 20, 2023 |
| Last update date |
Oct 03, 2023 |
| Contact name |
Kevin C sek |
| E-mail(s) |
kevin.sek@petermac.org
|
| Phone |
0432960331
|
| Organization name |
Peter MacCallum Cancer Centre
|
| Department |
Cancer Immunology
|
| Lab |
Beavis Lab
|
| Street address |
305 Grattan Street
|
| City |
Melbourne |
| State/province |
VIC |
| ZIP/Postal code |
3000 |
| Country |
Australia |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE230135 |
A2AR-eGFP reporter mouse enables elucidation of A2AR expression dynamics during anti-tumor immune responses |
|
| Relations |
| BioSample |
SAMN34264555 |
| SRA |
SRX20021996 |
