|
| Status |
Public on Apr 22, 2020 |
| Title |
Donor 4 CD26+ CD94hi +IL2 (D1 DP IL2) |
| Sample type |
SRA |
| |
|
| Source name |
Human PBMC
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: PBMC
cell type: CD3+ Vd2+ CD26+ CD94hi +IL2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from sorted cells using a Zymo Direct-zol RNA MicroPrep 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 NovaSeq 6000 |
| |
|
| Description |
Sample 14
Degust_Voom_Limma - IL23 expansion.csv, Raw counts - IL23 expansion.txt
|
| Data processing |
RNAseq analysis was performed using the web-based Galaxy platform maintained by Galaxy Australia.
Reads were mapped to the Homo sapiens reference genome (hg38) 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: hg38
Supplementary_files_format_and_content: CSV/tab-delimited text files include raw counts or CPM values
Supplementary_files_format_and_content: Degust_Voom_Limma - IL23 expansion.csv: Normalized abundance measurements - Degust output
Supplementary_files_format_and_content: Raw counts - IL23 expansion.txt: Raw counts - Htseq
|
| |
|
| Submission date |
Mar 17, 2020 |
| 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 |
GPL24676 |
| 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 |
SAMN14390730 |
| SRA |
SRX7925011 |
