|
| Status |
Public on May 26, 2023 |
| Title |
hapln1a+, development, scRNAseq |
| Sample type |
SRA |
| |
|
| Source name |
heart
|
| Organism |
Danio rerio |
| Characteristics |
strain: EK
tissue: heart
cell type: epicardial cells
cell type (sorted): hapln1a+
age: 7 weeks
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hearts were dissected from juvenile zebrafish, and ventricles were digested with Liberase TM (0.26 U/ml ). Dissociated cells were spun down and live EGFP+ cells were sorted by flow cytometry.
Library was performed according to the manufacter’s instructions (single cell 3’ v3.1 protocol, 10x Genomics )
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic single cell |
| Library selection |
cDNA |
| Instrument model |
NextSeq 550 |
| |
|
| Description |
10x Genomics
|
| Data processing |
All processing was performed in 10X Genomics CellRanger v3.1.0 using default parameters
Assembly: Danio_rerio_GRCz11
Supplementary files format and content: Cell Ranger outputs a .mtx file with the feature-barcode matrix. This matrix contains the counts of molecules per cell (UMI/cell) as determined after filtering and counting by Cell Ranger. The matrix is in market exchange format while the row (gene or feature) and columns (cell barcodes) are provided as TSV files. File formats are documented in the Cell Ranger software manual
|
| |
|
| Submission date |
Oct 26, 2022 |
| Last update date |
May 26, 2023 |
| Contact name |
Jinhu Wang |
| E-mail(s) |
jinhu.wang@emory.edu
|
| Organization name |
Emory University
|
| Street address |
101 WOODRUFF CIRCLE WMB 2304
|
| City |
ATLANTA |
| State/province |
Georgia |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
|
| Platform ID |
GPL25922 |
| Series (2) |
| GSE216646 |
hapln1a+ cells guide coronary growth during heart morphogenesis and regeneration [Dev, hapln1a+ cells] |
| GSE216649 |
Heart morphogenesis and regeneration |
|
| Relations |
| BioSample |
SAMN31467363 |
| SRA |
SRX18039091 |
