|
| Status |
Public on Jun 10, 2019 |
| Title |
10X_five_factor_protocol_day6 |
| Sample type |
SRA |
| |
|
| Source name |
hESC derived cells from day6 of five factor differentiation protocol
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: H9
passage number: P38-P47
|
| Growth protocol |
hES cells differentiatied to human embryonic stem cell derived endothelial product (hESC-ECP) using five factor differentiation protocol from Zhang et al., PNAS, 2017. Cells detached at day 6 using TrypLE Express Enzyme (Thermo Fisher Scientific, Waltham, USA).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Construction of single cell RNA-sequencing libraries was conducted using the Single Cell 3' Reagent Kit (10X Genomics, Pleasanton, USA) in accordance with the manufacturer’s protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Custom paired end, all reads informatiive. Read lengths: Read 1 = 26bp, Read 2 = 98bp, i7 index = 8bp
|
| Data processing |
Raw reads were processed using the 10X Cell Ranger pipeline v2.1.1 ( 10X Genomics) in order to perform read alignment, filtering, barcode and UMI (unique molecular identifier) counting, and subsequently generate gene-cell matrices.
Genome_build: GRCh38
|
| |
|
| Submission date |
May 24, 2019 |
| Last update date |
Jun 11, 2019 |
| Contact name |
Ian R McCracken |
| Organization name |
University of Edinburgh
|
| Department |
Centre for Cardiovascular Science
|
| Street address |
47 Little France Crescent
|
| City |
Edinburgh |
| ZIP/Postal code |
EH16 4TJ |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE131736 |
Transcriptional dynamics of pluripotent stem cell derived endothelial cell differentiation revealed by single cell RNA-Seq. |
|
| Relations |
| BioSample |
SAMN11843948 |
| SRA |
SRX5892001 |
