NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM5234126 Query DataSets for GSM5234126
Status Public on May 24, 2021
Title B01_W0
Sample type SRA
 
Source name Outbred Chinese origin and female
Organism Macaca mulatta
Characteristics gender: female
cell type: Purfied peripherial CD8+ T cells
treatment: Before vaccination 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 SAMN18683249
SRA SRX10564095

Supplementary file Size Download File type/resource
GSM5234126_B01_W0_barcodes.tsv.gz 5.6 Kb (ftp)(http) TSV
GSM5234126_B01_W0_features.tsv.gz 201.7 Kb (ftp)(http) TSV
GSM5234126_B01_W0_matrix.mtx.gz 4.8 Mb (ftp)(http) MTX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap