|
| Status |
Public on Oct 21, 2020 |
| Title |
D9_H1CD43_positive1 |
| Sample type |
SRA |
| |
|
| Source name |
in vitro hematopoietic cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: H1 human embryonic stem cells
treatment: hVEGF
cell type: hESC-derived cells
cell subtype: CD43+
time: D9
|
| Treatment protocol |
BMP4 and VEGF were used to initiate mesodermal differentiation of hESCs, then, starting from Day 3 of differentiation, the only growth factor in the culture medium was VEGF
|
| Growth protocol |
H1 hESCs were subjected to EB-primed planar differentiatiation in defined cell culture conditions and in the absence of exogenous hematopoietic cytokines
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Data processing |
bcl2fastq conversion software v2.17 used for basecalling.
Reads were aligned to the gencode (hg38_enst_v81) transcriptome using STAR (version 2.7)
The gene expression level was calculated by using STAR
The RNA-seq data processing was performed as described45. To analyze the regular gene expression, the reads were aligned to the reference transcriptome by RSEM46 and bowtie2 (—bowtie2— bowtie2-sensitivity-level very_sensitive —no-bam-output —estimate -rspd) using the index built by RSEM with the human genome, hg38 and Ensembl gene annotation track v81
Genome_build: hg38
|
| |
|
| Submission date |
Oct 20, 2020 |
| Last update date |
Oct 21, 2020 |
| Contact name |
cuihua wang |
| E-mail(s) |
wang_cuihua@gibh.ac.cn
|
| Organization name |
Guangzhou Institutes of Biomedicine and Health,Chinese Academy of Sciences
|
| Street address |
190 Kaiyuan Avenue, Guangzhou Science Park, Luogang District, Guangzhou
|
| City |
Guangzhou |
| ZIP/Postal code |
510000 |
| Country |
China |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE159672 |
Recapitulative hematopoietic development of human pluripotent stem cells in the absence of exogenous cytokines |
|
| Relations |
| BioSample |
SAMN16484534 |
| SRA |
SRX9317452 |
