|
| Status |
Public on Jan 27, 2021 |
| Title |
scRNAseq of TDL HIV-specific CD8+ T-cells (with B-cell spike in) from HIVPosSmpl1 |
| Sample type |
SRA |
| |
|
| Source name |
lymphocytes
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: TDL
disease state: HIVpos
cell type: HIV-specific memory CD8+ T-cells + B cells spike in
antigen-specificity: HIV
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Chromium Single-cell VDJ v1.1 kit (10X Genomics)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
basecalling and demultiplexing with cellranger/v4.0.0 mkfastq with bcl2fastq2/v2.20.0.422
generating barcode/feature matrices with cellranger/v4.0.0 count
generating clonotype data with cellranger/v4.0.0 vdj
Genome_build: hg38
Supplementary_files_format_and_content: cellranger count filtered output
|
| |
|
| Submission date |
Nov 24, 2020 |
| Last update date |
Jan 27, 2021 |
| Contact name |
Marcus Buggert |
| E-mail(s) |
marcus.buggert@ki.se
|
| Organization name |
Karolinska Institutet
|
| Department |
Microbiology
|
| Street address |
C2:94; Karolinska Universitetssjukhuset Huddinge
|
| City |
Stockholm |
| State/province |
PA |
| ZIP/Postal code |
141 86 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE162097 |
The identity of human tissue-emigrant CD8+ T cells (scRNAseq, scTCRseq, bulk RNA-seq) |
| GSE162180 |
The identity of human tissue-emigrant CD8+ T cells |
|
| Relations |
| BioSample |
SAMN16883149 |
| SRA |
SRX9568867 |
