|
| Status |
Public on Feb 24, 2020 |
| Title |
naïve KO rep1 |
| Sample type |
SRA |
| |
|
| Source name |
p14 T cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: p14 T cells (spleen)
age: post natal week 8
genotype: Tnik-/-;p14
|
| Treatment protocol |
One day post adoptive transfer of naïve WT and KO p14 T cells, mice were immunized with LCMV-WE strain. P14 T cells were purified form spleen at D6 or D80 post immunisation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from WT and KO p14 T cells of naïve, D6 and D80 immunized mice using the RNeasy Micro Kit (QIAGEN AG, Switzerland)
Libraries were generated from 10ng total RNA using the SmartSeq2 Kit (Takara Bio, Japan).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Naive p14 T cells form spleen
|
| Data processing |
Primary data analysis was performed with the Illumina RTA v1.18.66.3.
The sequence assembly and alignment was performed using the ArrayStar software v.13 (DNASTAR, USA).
The level of gene expression was assessed after Reads Per Kilobase Million (RPKM) normalization and log2 transformation.
Genome_build: GRCm38 - mm10
Supplementary_files_format_and_content: Tab-delimited text file includes linear total RPKM normalized values.
|
| |
|
| Submission date |
Mar 01, 2019 |
| Last update date |
Feb 24, 2020 |
| Contact name |
Ramin Radpour |
| Organization name |
University of Bern
|
| Department |
Department for BioMedical Research
|
| Street address |
Murtenstrasse 35
|
| City |
Bern |
| ZIP/Postal code |
3008 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE127734 |
TNIK signaling imprints CD8+ T memory formation early after priming |
|
| Relations |
| BioSample |
SAMN11042223 |
| SRA |
SRX5453035 |
