|
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 |