|
| Status |
Public on Sep 11, 2017 |
| Title |
14263X24 |
| Sample type |
SRA |
| |
|
| Source name |
155 Flox CD4cre CD4+ICB_003
|
| Organism |
Mus musculus |
| Characteristics |
strain: B6
|
| Treatment protocol |
Select mice were treated with anti-PD-1/PD-L1 and anti-CTLA-4 antibodies injected IP on days 3, 6, and 9 in a volume of 250 ul in concentrations of 1mg/mL, 1mg/mL and 0.4mg/ml respectively
|
| Growth protocol |
B16f10-OVA tumors were grown in cell culture before injecting 1 x 10^6 cells per mouse subcutaneously in the hind flank. Tumors were grown for 12 days. Tumors were then removed and digested with Accumax and flow sorted based on the above mentioned strategy.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were flow sorted, RNA was isolated with miRneasy micro kit, library was prepped.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads were aligned to mouse genome from Ensembl release 87 using STAR.
Reads mapping uniquely to features in the Ensembl mouse GTF were counted using featureCounts.
Differentially expressed genes were identified using a 5% false discovery rate with DESeq2
Genome_build: GRCm38 (mouse)
Supplementary_files_format_and_content: FeatureCount output files
|
| |
|
| Submission date |
Jul 20, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Ryan O'Connell |
| Organization name |
University of Utah
|
| Street address |
15 N Medical Dr.
|
| City |
Salt Lake City |
| State/province |
UT |
| ZIP/Postal code |
84112 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE101690 |
Sequencing of tumor associated (B16f10-OVA) mir-155 Wt or deficient CD4+ and CD8+ T cells |
|
| Relations |
| BioSample |
SAMN07373122 |
| SRA |
SRX3022175 |
