|
| Status |
Public on Apr 22, 2020 |
| Title |
Donor 1 CD26- CD94hi (D1 94) |
| Sample type |
SRA |
| |
|
| Source name |
Human PBMC
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: PBMC
cell type: CD3+ Vd2+ CD26- CD94hi
|
| 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 2
|
| 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 |
SAMN10408760 |
| SRA |
SRX5000955 |
