|
| Status |
Public on May 22, 2024 |
| Title |
WJK-2866_SRSF2_13_TCR_VDJ,SRSF2 Mutant |
| Sample type |
SRA |
| |
|
| Source name |
Peripheral Blood Mononuclear Cells
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Peripheral Blood Mononuclear Cells
library type: TCR-V(D)J
dextramer-negative cells_hashed: Y
|
| Extracted molecule |
other |
| Extraction protocol |
PBMCs were thawed, stained with a viability dye (GhostDye 510) and an antibody targeting CD45, and sorted for viable (GhostDye-negative), CD45+ cells.
Standard library construction was performed using a 10x Chromium Single Cell Immune Profiling Gel Bead Kit.
|
| |
|
| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq X Plus |
| |
|
| Data processing |
Single cell RNA data were processed using Cellranger v6.0.2 count workflow to generate gene expression count matrices. Feature barcoding libraries were used to generate ADT count matrices and demultiplex cells/ perform cell-to-sample assignment with Cite-seq-count v1.4.5. TCR data was processed using Cellranger’s vdj pipeline to generate cell-clonotype annotations.
Assembly: Human reference, GRCh38 (GENCODE v32/Ensembl 98)
Supplementary files format and content: Raw count matrices: RNA_counts.csv.gz,HTO_counts.csv.gz, DCODE_counts.csv.gz
Supplementary files format and content: TCR annotations: TCR_assignments.csv.gz
Library strategy: Single-cell immune profiling (RNA-Seq, surface proteomics, and TCR-seq)
|
| |
|
| Submission date |
May 22, 2024 |
| Last update date |
May 22, 2024 |
| Contact name |
Jahan Rahman |
| Organization name |
Memorial Sloan Kettering
|
| Department |
Center for Hematologic Malignancies
|
| Street address |
417 E 68th St
|
| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL34284 |
| Series (1) |
| GSE268157 |
Mis-splicing derived neoantigens and cognate T cell receptors in splicing factor mutant leukemias |
|
| Relations |
| BioSample |
SAMN41499409 |
| SRA |
SRX24657513 |
