|
| Status |
Public on Apr 18, 2024 |
| Title |
E0771 Vector control Rep2 after T cell killing |
| Sample type |
SRA |
| |
|
| Source name |
E0771
|
| Organism |
Mus musculus |
| Characteristics |
cell line: E0771
cell type: cancer cell
treatment: After T cell coculture
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from cells using RNAiso Plus Regent (Takara, Cat# 9108) following the manufacturer’s instructions.
The NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (NEB, Cat# E7765) was used to generate sequencing libraires from 1 μg of total RNA. All library preparations were conducted according to the manufacturer’s instructions. Paired-end 150bp sequencing was performed using an Illumina NovaSeq platform.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
The adaptors of paired-end reads were trimmed and quality control checks were carried out using trim-galore (v.0.6.0). Reads were aligned to mouse genome reference (GRCm38.p6) from GENCODE using STAR (v.2.7.3a). featureCounts (v.1.6.3) counted reads stored in BAM format to exon sites of genes included in GTF files from GENCODE.
|
| |
|
| Submission date |
Sep 08, 2023 |
| Last update date |
Apr 18, 2024 |
| Contact name |
Hanqiu Zheng |
| E-mail(s) |
hanzheng@tsinghua.edu.cn
|
| Organization name |
Tsinghua university
|
| Street address |
Haidian District
|
| City |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (1) |
| GSE242764 |
RNA-seq of E0771-Vector control, E0771-Malt1-WT and E0771 Malt1-PD after T cell killing |
|
| Relations |
| BioSample |
SAMN37331113 |
| SRA |
SRX21705984 |
