|
| Status |
Public on Jan 18, 2023 |
| Title |
Donor 2 GPC2.CD28H.BBz, day7 |
| Sample type |
SRA |
| |
|
| Source name |
T cells/tumor
|
| Organisms |
Homo sapiens; Mus musculus |
| Characteristics |
individual: Donor 2
tissue: T cells/tumor
cell line: IMR-5
cell type: T cells/tumor
genotype: WT/MYCN-amplified
treatment: CAR T
construct: GPC2.CD28H.BBz
time: day7
|
| Extracted molecule |
total RNA |
| Extraction protocol |
CAR T cells are manufactured and injected into tumor-bearing mice. The tumors are dissected on day 8 post injection and analyzed. The input cells are also analyzed.
We followed the 10x Genomics instructions for library generation.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Raw scRNA-seq fastq files from sequencing were processed using CellRanger (v.6.1.2, 10X Genomics) software suite with corresponding human GRCh38 reference. Cell barcodes were determined based on the distribution of UMI counts, and filtered gene-barcode matrix was generated by CellRanger (v.6.1.2).
Assembly: GRCh38
Supplementary files format and content: H5 file of filtered gene-barcode matrix
|
| |
|
| Submission date |
Sep 03, 2022 |
| Last update date |
Jan 18, 2023 |
| Contact name |
Yingying Cao |
| E-mail(s) |
yingying.cao@nih.gov
|
| Organization name |
National Institutes of Health
|
| Street address |
9000 Rockville pike
|
| City |
Bethesda |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL25526 |
| Series (1) |
| GSE212658 |
Preclinical optimization of a GPC2-targeting CAR T cell therapy for neuroblastoma |
|
| Relations |
| BioSample |
SAMN30661359 |
| SRA |
SRX17417600 |
