|
| Status |
Public on Mar 09, 2024 |
| Title |
CD45_B16F10_HTO |
| Sample type |
SRA |
| |
|
| Source name |
Tumor
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Tumor
cell type: CD45+ cells
strain: C57Bl/6
treatment: Mice were engrafted with B16-OVA tumor line (wild-type B16F10 mCherry OVA tumors, B16F10 mCherry OVA IFNGR1KO tumors)
library type: HTO
|
| Extracted molecule |
protein |
| Extraction protocol |
tumors were digested using Liberase TL (100ug/mL) and DNaseI prior to labelled with hashtag antibodies and anti-mouse CD45
Gene expression and feature barcoding sequencing libraries were prepared using the 10x Genomics Single Cell 5' Reagent Kits v2 (Dual Index) following manufacturer user guide (CG000330 Rev B). The final libraries were diluted to ~10nM for storage. The 10nM library was denatured and further diluted prior to loading on the NovaSeq6000 sequencing platform (Illumina, v1.5 chemistry, 28bp/98bp paired end for gene expression and feature barcoding, 150bp paired end for TCR libraries).
|
| |
|
| Library strategy |
OTHER |
| Library source |
other |
| Library selection |
other |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10X Genomics
|
| Data processing |
Sequence reads were mapped using CellRanger multi (version 6.0.0) with the 10x mouse reference transcriptome (version 2020-A).
Assembly: mm10
Supplementary files format and content: Tab-separated values files and matrix files
|
| |
|
| Submission date |
Mar 06, 2024 |
| Last update date |
Mar 09, 2024 |
| Contact name |
Audrey Gerard |
| E-mail(s) |
audrey.gerard@kennedy.ox.ac.uk
|
| Phone |
01865612665
|
| Organization name |
The Kennedy Institute of Rheumatology
|
| Street address |
Roosevelt Dr.
|
| City |
Oxford |
| ZIP/Postal code |
OX3 7FY |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE260972 |
Remodelling of the immune landscape by IFNγ counteracts IFNγ-dependent tumour escape in mouse tumour models |
|
| Relations |
| BioSample |
SAMN40280082 |
| SRA |
SRX23851866 |
