|
| Status |
Public on Dec 27, 2019 |
| Title |
Femoral_artery (single-cell RNA-seq) |
| Sample type |
SRA |
| |
|
| Source name |
Femoral artery
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Femoral artery
cell type: Sca1+ cells
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
To generate single-cell suspensions, femoral arteries isolated from both male and female mice (8 weeks old) were further digested in collagenase I for 30-60 min as described. In detail, femoral arteries were cut into 1mm small pieces, and these small pieces were digested by 1.5 mg/ml collagenase (Gibco, 17018029) at 37°C, during this process, artery pieces was frequent stirred to ensure full digestion. After sufficient digestion, cells were filtered through a 40-μm cell strainer, and the collected cells were centrifuged 5 min at 600g speed. Subsequently, cell pellet was suspended in PBS or DEME for further experiments
Single cell library was generated using Chromium™ Single Cell 3’ Library Kit v2
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
single cell RNA sequencing(collagenase I)
|
| Data processing |
R1 read: contains the cell barcode (first 16 nt) and UMI (next 10 nt).
R2 read: contains the RNA sequence.
Aligned reads and gene-barcode matrices were then generated from FASTQ files using Cell Ranger (v.2.1.1) processing pipeline.
Genome_build: mm10
Supplementary_files_format_and_content: TSV data for genes and barcodes; MTX data for gene expression matrix
|
| |
|
| Submission date |
Nov 01, 2019 |
| Last update date |
Dec 28, 2019 |
| Contact name |
Fei Li |
| E-mail(s) |
lifei6@sibcb.ac.cn
|
| Organization name |
Shanghai Institute of Biochemistry and Cell Biology, Chinese Academy of Sciences
|
| Street address |
320 Yue-Yang Road Shanghai
|
| City |
Shanghai |
| ZIP/Postal code |
200031 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE139827 |
Single cell RNA sequencing for mouse femoral artery |
|
| Relations |
| BioSample |
SAMN13178343 |
| SRA |
SRX7085359 |
