|
| Status |
Public on May 21, 2024 |
| Title |
Steady state wild type bone marrow myeloid progenitors |
| Sample type |
SRA |
| |
|
| Source name |
Bone Marrow
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Bone Marrow
strain: C57BL6
cell type: Myeloid progenitors
genotype: wild type
treatment: none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Myeloid progenitors (lineage-negative c-kit+ IL7Ra-) were sorted using a BD FACSAria III (BD Biosciences) cell sorter as described in Rosu et al.(DOI: 10.1084/jem.20200662 ) and were resuspended in Ca and Mg free PBS containing 0.4mg/ml of UltraPure™ BSA (Thermofisher, AM2616).In total, 16,000 sorted cells were submitted to the 10X Genomics pipeline for encapsulation aiming for a recovery of 10,000 sequenced single cells as described in the manufacturer’s instructions.
Sequencing libraries were prepared using Chromium Single Cell 3' Reagent Kit V3 (10X Genomics) as per manufacturer’s instructions and cDNA quality and quantity were controlled using Agilent High Sensitivity DNA Kit (Agilent) on a 2100 Bioanalyzer (Agilent).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x Genomics
|
| Data processing |
Demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software v3.0.2 (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
Assembly: mm10
Supplementary files format and content: Tab-separated values files and matrix files
|
| |
|
| Submission date |
Apr 07, 2023 |
| Last update date |
May 21, 2024 |
| Contact name |
Christophe J Desmet |
| E-mail(s) |
christophe.desmet@uliege.be
|
| Organization name |
University of Liege
|
| Lab |
Cellular and Molecular Immunology
|
| Street address |
B34, Avenue de l'Hopital 1
|
| City |
Liege |
| ZIP/Postal code |
4000 |
| Country |
Belgium |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE229208 |
Gene expression profile at single cell level of Bone Marrow Myeloid Progenitors |
| GSE249011 |
Bulk and single-cell RNA sequencing of human and murine eosinophil lineage cells |
|
| Relations |
| SRA |
SRX19907286 |
| BioSample |
SAMN34115960 |
