|
| Status |
Public on Jan 18, 2024 |
| Title |
Unstim_FOXO1_CD4 rep2 (RNA-seq) |
| Sample type |
SRA |
| |
|
| Source name |
PMBC
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: PMBC
cell type: T cell
genotype: FOXO1 overexpressing
treatment: Unstimulated
|
| 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 |
| |
|
| Description |
US-FOXO1-wt-CD4-2
|
| 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 human reference genome (hg19)
Read counting was performed with featureCounts from the subread package (v1.6.4)
Assembly: hg19
Supplementary files format and content: count file generated by featureCounts
|
| |
|
| Submission date |
Feb 17, 2023 |
| Last update date |
Jan 18, 2024 |
| Contact name |
Kevin C sek |
| E-mail(s) |
[email protected]
|
| 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 |
GPL18573 |
| Series (2) |
| GSE225522 |
Overexpression of FOXO1 enhances CAR T cell polyfunctionality, metabolic fitness and efficacy against solid tumors [Human RNAseq CD4] |
| GSE225527 |
Overexpression of FOXO1 enhances CAR T cell polyfunctionality, metabolic fitness and efficacy against solid tumors |
|
| Relations |
| BioSample |
SAMN33337722 |
| SRA |
SRX19401289 |
