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Sample GSM2124054 Query DataSets for GSM2124054
Status Public on Apr 15, 2016
Title LH097_N
Sample type SRA
 
Source name Donor LH097 Naïve T cells
Organism Homo sapiens
Characteristics donor id: LH097
cell type: naive T cells
Extracted molecule polyA RNA
Extraction protocol T cell subsets were sorted by fluorescence activated cell sorting (FACS) and total RNA was extracted using Trizol and isopropanol precipitation. Poly(A)+ mRNA was then isolated from each total RNA sample using streptavidin-coated superparamagnetic beads (Dynabeads, Life Technologies) coated in biotinylated LNA-oligo(dT) (Exiqon).
Purified poly(A)+ mRNA from each sample was reverse transcribed and Illumina sequencing libraries were enriched usign the SMARTer Stranded RNA-Seq kit (Clontech). The resulting libraries were sequenced on an Illumina NextSeq 500 with single-end 75-base reads.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Data processing Reads were mapped to the Ensembl GRCh37 human genome and transcriptome annotation (obtained from Illumina iGenomes) using Tophat 2 and uniquely mapped reads associated with each gene were counted using HTSeq.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited table of raw counts of uniquely mapped reads for each gene
 
Submission date Apr 14, 2016
Last update date May 15, 2019
Contact name Peter A Sims
E-mail(s) pas2182@columbia.edu
Organization name Columbia University
Street address 3960 Broadway, Lasker 203AC
City New York
State/province NY
ZIP/Postal code 10032
Country USA
 
Platform ID GPL18573
Series (1)
GSE80306 Aging-related virtually naïve memory T (TVNM) cells: a new stage in T cell response to persistent infections in humans
Relations
BioSample SAMN04857193
SRA SRX1705752

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

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