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Sample GSM3466257 Query DataSets for GSM3466257
Status Public on Apr 22, 2020
Title Donor 2 CD26- CD94lo (D2 DN)
Sample type SRA
 
Source name Human PBMC
Organism Homo sapiens
Characteristics tissue: PBMC
cell type: CD3+ Vd2+ CD26- CD94lo
Extracted molecule total RNA
Extraction protocol RNA was isolated from sorted cells using a QIAGEN RNeasy Plus Micro Kit, as per manufacturer's protocol.
Illumina Truseq Stranded mRNA kit was use for library construction. RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description Sample 8
Data processing RNAseq analysis was performed using the web-based Galaxy platform maintained by Melbourne Bioinformatics.
Reads were mapped to the Homo sapiens reference genome (hg19) using HISAT2 and reads were quantified using HTSeq.
Count matrices were generated and inputted into Degust (http://degust.erc.monash.edu) for final data analysis and visualization. The Degust Voom/Limma method was selected for data processing.
Genome_build: hg19
Supplementary_files_format_and_content: Degust_Voom_Limma.csv: Normalized abundance measurements - Degust output
Supplementary_files_format_and_content: Raw_counts_all_subsets.txt: Raw counts -- HTseq
 
Submission date Nov 10, 2018
Last update date Apr 22, 2020
Contact name Hyon Xhi Tan
E-mail(s) hxtan@unimelb.edu.au
Organization name The University of Melbourne, at the Peter Doherty Institute for Infection and Immunity
Department Department of Microbiology and Immunology
Street address 792 Elizabeth St
City Melbourne
State/province Victoria
ZIP/Postal code 3010
Country Australia
 
Platform ID GPL16791
Series (1)
GSE122409 High CD26 and low CD94 expression identifies an IL-23 responsive V(delta)2+ T cell subset with a MAIT cell-like transcriptional profile
Relations
BioSample SAMN10408754
SRA SRX5000961

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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