|
| Status |
Public on Sep 17, 2020 |
| Title |
Tgfbr2-/-Eomes-/- CD8+ regulatory T cells |
| Sample type |
SRA |
| |
|
| Source name |
CD8+ regulatory T cell
|
| Organism |
Mus musculus |
| Characteristics |
genotype: Tgfbr2-/-Eomes-/-
tissue: CD8+ regulatory T cell from the spleen
|
| Treatment protocol |
N/A
|
| Growth protocol |
CD8+ regulatory T cells were directly sorted from the spleens of naïve mice without further manipulation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from sorted cells using Quick-RNA miniprep kit from Zymo Research (Cat# 11-328)
Total RNA samples about 1-2 µg were used for sequencing library preparation according to Illumina TruSeq Total RNA Sample Preparation Guide (Illumina Cat. #: RS-122-2201). Each library was bar-coded and then pooled for cluster generation and sequencing run with 50bp single-end (SE) sequencing protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Data processing |
Illumina bcl2fastq software used for base-calling
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm9 whole genome using TopHat v2.0.8b
gene count measurements were obtained using HTSeq-count
Genome_build: mm9
Supplementary_files_format_and_content: The processed data files are in tabular format. The first column contains the gene symbols and the second column contain the read counts of the gene using htseq-count
|
| |
|
| Submission date |
Jan 15, 2019 |
| Last update date |
Sep 17, 2020 |
| Contact name |
YI ZOU |
| E-mail(s) |
zou@uthscsa.edu
|
| Organization name |
UTHSA-GCCRI
|
| Street address |
8403 Floyd Curl Drive
|
| City |
SAN ANTONIO |
| State/province |
TX |
| ZIP/Postal code |
78229 |
| Country |
USA |
| |
|
| Platform ID |
GPL21493 |
| Series (1) |
| GSE125111 |
TGF-b and Eomesodermin coordinate to maintain CD8+ regulatory T cells and limit spontaneous germinal center reaction |
|
| Relations |
| BioSample |
SAMN10748827 |
| SRA |
SRX5251273 |
