|
| Status |
Public on May 20, 2021 |
| Title |
H1-AATSI-rep2 |
| Sample type |
SRA |
| |
|
| Source name |
human embryonic stem cell line H1
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Embryonic stem cells
passage number: 85
|
| Treatment protocol |
For monolayer based EC and SMC differentiation, pluripotent stem cells were first cultured in E8 medium, after replating, E8 medium was changed to RPMI1640 medium with AATS supplement with or without insulin, and with BMP4 and CHIR99021. After 3 days of induction, cells were replated and cultured in RPMI1640 medium with AATS supplement and VEGF and FGF. On differentiation day 8, CD31+ and SM22a+ cells were sorted and subjected to RNA-seq analysis.
|
| Growth protocol |
Undifferentiated hESCs was cultured in E8 medium without feeders.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNeasy Plus Mini Kit (Qiagen) and treated with Rnase-free DNase.
RNA-seq library was prepared following the Smart-seq2 protocol (Picelli, 2014)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
cultured cells
RNA-seq FPKM1.xlsx
|
| Data processing |
Illumina Casava software was used for basecalling.
Sequenced reads were trimmed for adaptor sequences, and masked for low-complexity or low-quality sequences, then mapped to hg38 genome using RSEM.
Fragments Per Kilobase per Million mapped reads (FPKM) of Refseq genes were caculated.
Genome_build: hg38
Supplementary_files_format_and_content: Table of gene names and FPKM values for each sample.
|
| |
|
| Submission date |
May 22, 2018 |
| Last update date |
May 20, 2021 |
| Contact name |
Jie Na |
| E-mail(s) |
jie.na@tsinghua.edu.cn
|
| Phone |
+86-18618192150
|
| Organization name |
Tsinghua University
|
| Department |
Basic Medical Sciences, School of Medicine
|
| Lab |
D115 School of Medicine
|
| Street address |
Tsinghua University
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
| |
|
| Platform ID |
GPL20795 |
| Series (1) |
| GSE114776 |
Next Generation Sequencing Analysis of human pluripotent stem cells derived endothelial and smooth muscle cells |
|
| Relations |
| BioSample |
SAMN09238158 |
| SRA |
SRX4113018 |
