|
| Status |
Public on Mar 31, 2019 |
| Title |
wild type CD4SP spleen cells rep1 |
| Sample type |
SRA |
| |
|
| Source name |
CD4+CD8- Spleen T cell
|
| Organism |
Mus musculus |
| Characteristics |
cell type: spleen cells
strain: C57Bl/6J
age: 4-8 weeks
cell markers: CD4+ and CD8-
|
| Treatment protocol |
thymocyte and spleen cells were sorted based on CD4, CD8 and TCR beta expression pattern.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was isolated using Trizol(ThermoFisher sientific) reagent
SureSelect Strand Specific RNA-Seq LibraryPreparation kit (Agilent Technologies) was used according to the manufacturer’s protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Basecalls performed using CASAVA version 1.4
RNA-seq reads were alingned to the mm10 genome assembly using Hisat2 with default option
data were processed with Cufflinks ver2.2.1
Genome_build: mm10
Supplementary_files_format_and_content: fpkm_tracking of each gene
|
| |
|
| Submission date |
Apr 02, 2018 |
| Last update date |
Mar 31, 2019 |
| Contact name |
kiyokazu kakugawa |
| E-mail(s) |
kiyokazu.kakugawa@riken.jp
|
| Phone |
81455037045
|
| Organization name |
Riken
|
| Department |
IMS
|
| Lab |
Immune Crosstalk
|
| Street address |
1-7-22 Suehiro-cho
|
| City |
Yokohama |
| State/province |
Kanagawa |
| ZIP/Postal code |
2300045 |
| Country |
Japan |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE112609 |
RNA-seq data from double positive thymocyte and CD4 or CD8 single positive spleen T cell |
|
| Relations |
| BioSample |
SAMN08833062 |
| SRA |
SRX3873696 |
