|
| Status |
Public on Jun 28, 2024 |
| Title |
PyMT 12 weeks 1 |
| Sample type |
SRA |
| |
|
| Source name |
Tumor
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Tumor
age: 12 weeks
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Tumors were dissected and collected in cold PBS. Tumors were minced and placed in dissociation media consisting of RPMI supplemented with 2 mg/ml collagenase I, 5% FBS and 15 U/ml DNAse. Samples were dissociated using the gentleMACS dissociator (Miltenyi Biotec), and filtered through a 70 μm cell strainer. After red blood cell lysis, cell suspensions were washed with PBS with 0.04% BSA and 6000 cells were loaded into a Single Cell A Chip.
Library preparation was done following manufacturer's instructions for the ChromiumTM Single Cell Reagent Kit v2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
all.tumor.sobj.rds
|
| Data processing |
CellRanger 3.0.2
Seurat 3.0.2
Assembly: mm10
Supplementary files format and content: Cellranger filtered_feature_bc_matrix.h5
Supplementary files format and content: Seurat object RDS file
|
| |
|
| Submission date |
Jun 20, 2024 |
| Last update date |
Jun 28, 2024 |
| Contact name |
Christopher Russell Chin |
| E-mail(s) |
[email protected]
|
| Phone |
3393640514
|
| Organization name |
Weill Cornell
|
| Lab |
Melnick Lab
|
| Street address |
413 E 69th Street, Belfer Building, BB-1462
|
| City |
New York City |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE270295 |
Hypoxic Memory Mediates Prolonged Tumor Intrinsic Type I Interferon Suppression to Promote Breast Cancer Progression [scRNA-seq] |
| GSE270903 |
Hypoxic Memory Mediates Prolonged Tumor Intrinsic Type I Interferon Suppression to Promote Breast Cancer Progression |
|
| Relations |
| BioSample |
SAMN41934470 |
| SRA |
SRX24989210 |
