|
| Status |
Public on Jun 01, 2022 |
| Title |
CD4+ T cells - OA_heavy_rep3 [OA3_S27] |
| Sample type |
SRA |
| |
|
| Source name |
CD4+ T cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: CD4+ T cells
strain: C57BL/6
molecule subtype: heavy polysome fraction polyA RNA
|
| Treatment protocol |
Mice were immunized with AOV alum then treated for 7 days with daily PO treatment of vehicle alone orwith eIF4E inhibitor 4EGI-1 at 25 mg/kg. CD4+ T cells and TFH cells were FACS isolated gating on CD4+CD45+ or CD4+PD1_CXCR5+, respectively.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Sucrose gradients were run; RNA was extracted from isolated CD4+ T cells and CD4+ TFH cells for total mRNA using Trizol, and from heavy and lightribosome sucrose gradient fractions from translatomic analysis. RNAs were subjected to Zymo clean and concentrated.
Illumina automated stranded RNA-seq library prep, polyA selection
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Bowtie used to align the reads to the reference, and the aligned reads were counted per gene.
DGE and translational efficiency were calculated using RIVET (Ernlund etal, BMC Gen, 2018)
Genome_build: mm9
Supplementary_files_format_and_content: NormalisedCounts
|
| |
|
| Submission date |
Jan 13, 2022 |
| Last update date |
Jun 01, 2022 |
| Contact name |
Robert Schneider |
| E-mail(s) |
robert.schneider@nyulangome.org
|
| Organization name |
NYUSOM
|
| Street address |
450 E29th Str
|
| City |
New York |
| ZIP/Postal code |
10016 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE193652 |
Translational regulation of T follicular helper cell differentiation |
|
| Relations |
| BioSample |
SAMN24962934 |
| SRA |
SRX13776802 |
