|
| Status |
Public on Nov 05, 2023 |
| Title |
J558 allograft, Vehicle, Day 6 |
| Sample type |
SRA |
| |
|
| Source name |
allograft tumor
|
| Organism |
Mus musculus |
| Characteristics |
tissue: allograft tumor
cell line: J558
cell type: B lymphocyte
time: Day 6
treatment: 0.5% methylcellulose
|
| Treatment protocol |
The J558-allografted BALB/c female mice were orally administered 0.5% methylcellulose as vehicle or TAK-931 at 60 mg/kg, QD for 6 days.
|
| Growth protocol |
J558 cells were maintained in DMEM supplemented with 10% Horse Serum and penicillin/Streptomycin in humidified atmosphere with 5% CO2 at 37C. The female BALB/c mice were inoculated subcutaneously with 5 × 10e5 J558 cells each (in 0.1 mL, no Matrigel) in the right flank.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The J558 allografted tumor samples were sliced into small pieces (2–4 mm3) and then isolated into single cells using Tumor Dissociation kit (Miltenyi Biotec). The cells were filtlated with 70 mm and 30 mm niron mesh. After centrifugation, the supernatant was discarded, suspended in 1xRBC lysis Solution (Invitrogen), centrifuged with 10% FBS/DMEM, and suspended in 10% FBS/PBS.
Library was performed according to the manufacter's instructions (Single Cell 3’ GEM v3.1, 10x Genomics).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
cellranger-6.0.0
Assembly: refdata-gex-mm10-2020-A
Supplementary files format and content: Tab-separated values files and matrix file
|
| |
|
| Submission date |
Oct 10, 2023 |
| Last update date |
Nov 05, 2023 |
| Contact name |
Akihiro Ohashi |
| E-mail(s) |
aohashi@east.ncc.go.jp
|
| Phone |
+81-4-7133-1111
|
| Organization name |
National Cancer Center Japan
|
| Department |
Exploratory Oncology Research and Clinical Center
|
| Lab |
Division of Collaborative Research and Development
|
| Street address |
6-5-1 Kashiwanoha
|
| City |
Kashiwa |
| State/province |
Chiba |
| ZIP/Postal code |
2778577 |
| Country |
Japan |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE244986 |
Gene expression profile at single cell level of J558 allograft mouse model treated with the CDC7-specific inhibitor TAK-931 [scRNA-seq] |
|
| Relations |
| BioSample |
SAMN37752688 |
| SRA |
SRX22046322 |
