|
| Status |
Public on Jan 23, 2019 |
| Title |
Hif-1a wt + chemotherapy treatment |
| Sample type |
SRA |
| |
|
| Source name |
MLL-AF9-induced leukemic cells
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Bone Marrow
strain: C57BL6
age: 11 weeks
genotype/variation: Hif-1a wt
agent: chemotherapy
|
| Treatment protocol |
Mice were transplanted with primary leukemias. Ten days later mice were treated intraperitoneal (ip) with 1mg tamoxifen or vehicle for 5 days. Afterwards, mice were treated ip with 100 mg/Kg cytarabine for 5 days and 3mg/kg doxorubicin for 3 days or PBS as control.
|
| Growth protocol |
c-Kit+ bone marrow cells (isolated with magnetic beads) from Hif-1alphaLox/Lox; CreERT2 mice were transduced with MLL-AF9-retrovirus and transplanted into wild type mice to generate primary leukemic cells.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
3 days after end of treatment, bones (crista, femur, tibia) were collected from mice and bone marrow extracted by crushing bones in mortar. GFP+ cells (MLL-AF9-transduced) were sorted by flow cytometry on a BDFacsAriaII using 70 micron nozzle.
Libraries were constructed according to 10x genomics Chromium Single Cell 3' Reagents Kit V2 Protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Fastq files were created using Cellranger 1.3
Reads were mapped and UMIs counted using CellRanger 1.3
Genome_build: mm10
Supplementary_files_format_and_content: A raw count matrix was generated using Seurat v2.3.4. Genes in the rows, and cells across the columns. -1 in the cellID denotes Kochemo, -2 WTchemo, -3 KOPBS. -4 WTPBS
|
| |
|
| Submission date |
Sep 05, 2018 |
| Last update date |
Jan 23, 2019 |
| Contact name |
Shamit Soneji |
| Organization name |
BMC
|
| Street address |
Solvegatan 19
|
| City |
Lund |
| ZIP/Postal code |
22184 |
| Country |
Sweden |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE119484 |
Hif-1alpha deletion leads to adverse treatment efficacy in a mouse model of MLL-AF9 driven AML |
|
| Relations |
| BioSample |
SAMN09976654 |
| SRA |
SRX4643596 |
