|
Status |
Public on Jan 08, 2018 |
Title |
WT2_CD25+ |
Sample type |
SRA |
|
|
Source name |
WT_CD25+_CD4+ YFP+ T cells
|
Organism |
Mus musculus |
Characteristics |
genotype/variation: Foxp3-IRES-YFP-Cre cell type: CD4+ YFP+ T cells
|
Treatment protocol |
No treament.
|
Growth protocol |
T cells were cultured in DMEM medium supplemented with 10%FBS, 1x non-essential amino acids, 10 mM HEPES, pH7.4, 50 µM β-mercaptoethanol at 37°C in 5% CO2.
|
Extracted molecule |
total RNA |
Extraction protocol |
T cells were isolated from the spleen and lymph nodes, then sorted for CD4+ YFP+ CD25+ or CD4+ YFP+ CD25- and finally lysed in TRIzol. RNA libraries from the sorted CD25+ or CD25- Treg (CD4+ YFP+) cells were prepared according to the Encore Complete RNA-Seq DR Multiplex Systems (NuGEN Technologies).
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 1500 |
|
|
Description |
processed data file: tregs_rnaseq_counts.csv
|
Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to the mouse transcriptome based on RefSeq (RNA-seq) using segemehl v0.1.7-411 with parameters --accuracy 90. Transcript counts were calculated based on uniquely mapped reads. Genome_build: mm10 Supplementary_files_format_and_content: tab-delimited text files include read counts for each sample (RNA-seq).
|
|
|
Submission date |
Jul 17, 2017 |
Last update date |
May 15, 2019 |
Contact name |
Joao C Guimaraes |
E-mail(s) |
joaoguima@gmail.com
|
Organization name |
University of Basel
|
Department |
Biozentrum
|
Street address |
Klingelbergstrasse 50 / 70
|
City |
Basel |
ZIP/Postal code |
4056 |
Country |
Switzerland |
|
|
Platform ID |
GPL18480 |
Series (1) |
GSE86110 |
Roquin suppresses PI3K-mTOR signaling to control T cell differentiation and Treg effector function |
|
Relations |
BioSample |
SAMN07357668 |
SRA |
SRX3009091 |