|
| Status |
Public on Oct 27, 2020 |
| Title |
BPB_2 |
| Sample type |
SRA |
| |
|
| Source name |
hESCs EB differentiation
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: H1
original cell type: human embryonic stem cells
Sex: male
time point: 21-day EB differentiation
treatment: BPB
|
| Treatment protocol |
Cells were treated with 100 nM bisphenols or 0.01% DMSO (control) for 21 days.
|
| Growth protocol |
H1 were cultured in mTeSR1 medium. Single hESCs were seeding in microwell to form cell aggregates, then transferred into ultralow plates for 21-day EB differentiation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extraction was obtained with the RNeasy Plus Mini Kit (74136, QIAGEN, Germany) according to the guidance.
The cDNA library construction and sequencing were performed at Beijing Genomics Institute, using the BGISEQ-500 platform.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Description |
hESCs-H1
mRNA
processed data file: core_table.xls
|
| Data processing |
Base calling were conducted with BGISEQ-500.
Reads were filtered by Trimmomatic (v0.360), summarized with SOAPnuke (v1.4.0).
The clean data were alignment to the reference genome, GRCh3.p11 (hg38), and the expected counts were calculated by using Bowtie2 (v2.2.5).
Genome_build: GRCh3.p11 (hg38)
Supplementary_files_format_and_content: core_table.xls: Excel file includes FPKM values.
|
| |
|
| Submission date |
May 01, 2020 |
| Last update date |
Oct 27, 2020 |
| Contact name |
Xiaoxing Liang |
| E-mail(s) |
liangxiaoxing16@mails.ucas.ac.cn
|
| Organization name |
Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences,
|
| Street address |
18 Shuangqing Road
|
| City |
Beijing |
| ZIP/Postal code |
100082 |
| Country |
China |
| |
|
| Platform ID |
GPL23227 |
| Series (1) |
| GSE149753 |
Evaluation of the effects of low nanomolar bisphenol A-like compounds’ levels on early human embryonic development and lipid metabolism with human embryonic stem cell in vitro differentiation models |
|
| Relations |
| BioSample |
SAMN14792758 |
| SRA |
SRX8241902 |
