|
| Status |
Public on May 24, 2021 |
| Title |
B03_W4 |
| Sample type |
SRA |
| |
|
| Source name |
Outbred Chinese origin and female
|
| Organism |
Macaca mulatta |
| Characteristics |
gender: female
cell type: Purfied peripherial CD8+ T cells
treatment: 4 weeks post immunization of pRhPD-1-p27 DNA vaccine
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The Chromium Single Cell V(D)J Reagent Kit from 10X genomics were used according to the manufacturer’s protocol. In brief, purified CD8+ T cells were subjected to single cell encapsulation by 10X Chromium Controller, followed by barcoding, reverse transcription for cDNA synthesis, clean up and cDNA amplification and target enrichment from cDNA for subsequent library construction.
Library construction followed the protocol of 10X Chromium Single Cell V(D)J Reagent Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Single-cell RNA transcriptome analysis
|
| Data processing |
Customized Macaca mulatta reference package was created by the mkref function in Cell Ranger software (version 3.1.0) using the Macaca mulatta reference genome from Ensembl (Mmul_8.0.1, release 97)
Unique molecular identifier (UMI) counts generated by aligning raw FASTQ files to the customized reference tracscriptome using the count function of Cell Ranger (version 3.1.0)
Genome_build: Mmul 8.0.1
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every cell
|
| |
|
| Submission date |
Apr 09, 2021 |
| Last update date |
May 25, 2021 |
| Contact name |
Ming Yue |
| E-mail(s) |
nervym7@connect.hku.hk
|
| Organization name |
The University of Hong Kong
|
| Street address |
21 Sassoon Road, Pokfulam
|
| City |
Hong Kong |
| ZIP/Postal code |
999077 |
| Country |
China |
| |
|
| Platform ID |
GPL27943 |
| Series (1) |
| GSE171783 |
Sustained viremia suppression by SHIVsf162p3cn-recalled effector-memory CD8+ T cells after PD1-based vaccination |
|
| Relations |
| BioSample |
SAMN18683242 |
| SRA |
SRX10564102 |
