|
Status |
Public on May 28, 2020 |
Title |
single cells_INCB059872 4d B |
Sample type |
SRA |
|
|
Source name |
lineage-negative bone marrow
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 tissue: lineage-negative bone marrow time (days): 4
|
Treatment protocol |
Mice were treated daily with 10 mg/kg INCB059872 via oral gavage.
|
Extracted molecule |
total RNA |
Extraction protocol |
Bone marrow was harvested from femurs and tibias and stained with BD Pharmingen Biotin Mouse Lineage Panel and streptavidin-PacBlue. Zombie-NIR Fixable Viability Dye was added to each sample at 1:1000 dilution before sorting alive lineage-negative population (PacBlue-/NIR-). Sorted cells were submitted for single-cell RNA-seq using 10X Genomics Chromium Controller. Barcoded cDNA libraries were prepared according to instructions from 10X Genomics.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
Samples were demultiplexed and single-cell gene expression matrices were generated using Cell Ranger software. Seurat R package was used for downstream analysis. Genome_build: mm10 Supplementary_files_format_and_content: "filtered_feature_bc_matrix" folder contents from Cell Ranger output (Genes.tsv, Barcodes.tsv, Matrix.mtx)
|
|
|
Submission date |
Feb 13, 2020 |
Last update date |
May 28, 2020 |
Contact name |
Scott Hiebert |
Organization name |
Vanderbilt University
|
Street address |
2220 Pierce Ave.
|
City |
Nashville |
State/province |
TN |
ZIP/Postal code |
37232 |
Country |
USA |
|
|
Platform ID |
GPL24247 |
Series (1) |
GSE145279 |
Single-cell RNA-seq: INCB059872 in wild-type murine bone marrow |
|
Relations |
BioSample |
SAMN14101645 |
SRA |
SRX7719986 |