|
| Status |
Public on Jun 01, 2024 |
| Title |
RNA-seq-Tn-KO1 |
| Sample type |
SRA |
| |
|
| Source name |
Spleen
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Spleen
cell line: C57BL/6
cell type: Naive CD8
genotype: Mettl3deltaCd4
treatment: 6~8 weeks
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Naïve (CD44−CD62L+) CD8+ T cells were sorted from Mettl3ΔCd4 and control mice (3 samples per group), effector (CD44+CD62L−EYFP+) CD8+ T cells (2 samples per group), and memory (CD44+EYFP+) CD8+ T cells (2 samples from control donors and 3 samples from Mettl3ΔGzmb donors ) were sorted from recipient mice in adoptive transfer experiments. Total RNAs were extracted from indicated cells and then submitted to RNA-Seq protocol.
libraries are constructed according to the standard protocol for Smart-seq2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
GNK1
|
| Data processing |
FastQC was used to identify features of the raw data that may indicate quality problems
Low quality bases were removed using Trim_galore
Reads were mapped to the mouse reference genome (mm10) with Tophat2
The reads counts were assigned to genes using Htseq
The fold change and p-value of the genes were estimated by DESeq2
Supplementary files format and content: mm10
Supplementary files format and content: xlsx format. Read counts for each gene
|
| |
|
| Submission date |
Oct 14, 2022 |
| Last update date |
Jun 01, 2024 |
| Contact name |
Shuyang Yu |
| E-mail(s) |
ysy@cau.edu.cn
|
| Organization name |
China Agricultural University
|
| Department |
College of Biological Sciences
|
| Street address |
2 Yuanmingyuan West Road
|
| City |
Beijing |
| ZIP/Postal code |
100193 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE215759 |
Mettl3-dependent m6A modification is essential for effector differentiation and memory formation of CD8+ T cells [RNA-seq] |
| GSE215762 |
Mettl3-dependent m6A modification is essential for effector differentiation and memory formation of CD8+ T cells |
|
| Relations |
| BioSample |
SAMN31281024 |
| SRA |
SRX17889288 |
