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Sample GSM850876 Query DataSets for GSM850876
Status Public on Aug 08, 2012
Title RNA-seq of anti-CD3/anti-CD28 treated CD4+ T cells_4 hours
Sample type SRA
Source name CD4+ T cells_anti-CD3/anti-CD28 treated_4hr
Organism Mus musculus
Characteristics strain: C57BL/6JJcl
gender: male
cell type: CD4+ T cells
treatment: Treated with immoblised anti-CD3/anti-CD28 for 4 hours
Treatment protocol Cells were treated with plate-immoblised anti-CD3e (2 ug/ml) and anti-CD28 (2 ug/ml) for 4 hours or were mock treated identically but omitting the antibody. Total RNA was harvested using TRIzol according to the manufacturers protocol
Growth protocol CD4+ T cells were purified from 4 pooled mice spleens using the BD IMag CD4+ T cell enrichment kit -DM, according to the manufacturers instructions.
Extracted molecule total RNA
Extraction protocol Library and Sequencing were performed at BGI, China. Library Constuction and Sequencing were performed using standard Illumnina kits and protocols. Insert sizes were 199.014 bp for anti-CD3/CD28 treated CD4+ T cells and 211.79 bp for Mock treated CD4+ T cells
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Description RNA-seq of anti-CD3/anti-CD28 treated CD4+ T cells for 4 hours
Data processing TCD4_cd328-RNAseq-junctions.bed; genome build: mm9
Alignment: Sequence reads were aligned to the mm9 mouse genome assembly using the TopHat and Cufflinks combination
Splice Junctions: A bed file containing the splice junctions as determined by the TopHat and Cufflinks combination
Submission date Dec 19, 2011
Last update date May 15, 2019
Contact name Andrew P Hutchins
Organization name Southern University of Science and Technology
Department Bioinformatics
Lab Bioinformatics and Genomics
Street address 1088 Xueyuan Rd
City Shenzhen
ZIP/Postal code 518055
Country China
Platform ID GPL13112
Series (1)
GSE34550 Systematic RNA-seq analysis of the early events of CD4+ T cell activation
SRA SRX112211
BioSample SAMN00767527

Supplementary file Size Download File type/resource
GSM850876_TCD4_cd328-RNAseq-junctions.bed.gz 1.9 Mb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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