NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4064317 Query DataSets for GSM4064317
Status Public on Jan 01, 2020
Title RNA-seq Control 3 naïve
Sample type SRA
 
Source name Naïve CD8 T cells
Organism Mus musculus
Characteristics cell type: Naive CD8 T cells
surface marker: CD8+CD25-CD62LhiCD44low
treatment: Control
Growth protocol Naïve OT-I (CD45+, CD8+, CD62L+, CD44-) or stimulated (CD4-, CD8+) CD8 T cells were sorted from spleen and/or LNs. T cells were enriched before FACS by utilizing Pan T cell MACS kit (Miltenyi Biotec) and sorted with BD FACS Aria (BD Bioscience).
Extracted molecule polyA RNA
Extraction protocol RNA was purified from T cells using QIAGEN RNeasy columns (74106) with on-column DNase digestion according to the manufacturer’s instructions.
RNA-seq libraries were constructed following Illumina Tru-seq stranded mRNA protocol (20020594).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description RNA-seq
Naive_processed.txt
Data processing The sequences were basecalled by Illumina RTA embedded in NextSeq Control Software by the standard workflow.
Reads were aligned to the mouse genome (mm10) using STAR (v2.5.3a) and annotated with Ensembl Transcripts release 91 in Partek® Genomics Suite® software, version 7.0 (2018).
Genome_build: mm10(GRCm38)
Supplementary_files_format_and_content: a tab-delimited file including Gene symbol, Gene type and CPM (counts per million).
 
Submission date Sep 05, 2019
Last update date Jan 01, 2020
Contact name Jaechul Lim
E-mail(s) jaechul.lim@snu.ac.kr
Organization name Seoul National University
Street address 1 Gwanak-ro, 1 Gwanak-gu
City Seoul
State/province CT
ZIP/Postal code 08826
Country South Korea
 
Platform ID GPL19057
Series (2)
GSE136978 Long-term programming of CD8 T cell immunity by perinatal exposure to stress hormone [RNA-seq]
GSE136980 Long-term programming of CD8 T cell immunity by perinatal exposure to stress hormone
Relations
BioSample SAMN12703293
SRA SRX6809360

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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