|
| Status |
Public on Mar 11, 2024 |
| Title |
AGM E11.5, technical replicate 1, scRNAseq |
| Sample type |
SRA |
| |
|
| Source name |
Aorta-Gonad-Mesonephros
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Aorta-Gonad-Mesonephros
development stage: E11.5
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
C57BL/6 pregnant mice were used and embryos were collected at E11.5. AGMs were dissected and treated by collagenase treatment to prepare single cell suspension.
Chromium 10X technology v3.1
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
10x Genomics
|
| Data processing |
The demultiplexing, barcoded processing, gene counting and aggregation were made using the Cell Ranger software (https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/latest/what-is-cell-ranger)
CellRanger software version 4.0.0
Assembly: mm10
Supplementary files format and content: Matrix (.mtx), features (.tsv) and barcodes (.tsv) output files from CellRanger
Supplementary files format and content: Metadata files (.tsv) with UMAP coordinates and cell identities
|
| |
|
| Submission date |
Jul 27, 2023 |
| Last update date |
Mar 11, 2024 |
| Contact name |
Charles Durand |
| E-mail(s) |
charles.durand@sorbonne-universite.fr
|
| Phone |
+33 1 44 27 22 84
|
| Organization name |
Sorbonne University
|
| Department |
Laboratory of Developmental Biology
|
| Lab |
CNRS UMR7622
|
| Street address |
9, quai saint-Bernard
|
| City |
Paris |
| ZIP/Postal code |
75005 |
| Country |
France |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE159592 |
Molecular analysis of the subaortic hematopoietic stem cell niche |
| GSE239434 |
A neuro-mesenchymal cell subpopulation characterises the subaortic hematopoietic stem cell niche |
|
| Relations |
| BioSample |
SAMN36730473 |
| SRA |
SRX21172869 |
