|
| Status |
Public on Jun 16, 2020 |
| Title |
BT2 hTSC Rep2 |
| Sample type |
SRA |
| |
|
| Source name |
BT2 hTSC
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Human trophoblast stem cells
|
| Growth protocol |
hTSCs were cultured according to published protocol(Okae et al., 2018) with the following alterations. 0.5-1 x 105 cells were plated on each well of a six-well plate, and cells were passaged every 5-7 days. Cells were grown at 5% O2 5% CO2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction was performed using Qiagen RNeasy micro kit
mRNA was enriched from 500ng total RNA using NEBNext Poly(A) mRNA Magnetic Isolation Module kit and libraries were generated using Swift RNA library kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
FASTQ files were mapped to hg19 using the STAR aligner with default parameters.
Bam files were analyzed by RNA-SeQC to confirm library quality.
Read counts were calculated with htseq-count and RPKM was calculated using cufflinks with default settings.
Genome_build: hg37
Supplementary_files_format_and_content: readcount file
|
| |
|
| Submission date |
Jun 09, 2020 |
| Last update date |
Jun 16, 2020 |
| Contact name |
Yixin Guo |
| E-mail(s) |
[email protected]
|
| Organization name |
Zhejiang University
|
| Street address |
718 East Haizhou Rd.
|
| City |
Haining |
| ZIP/Postal code |
314400 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE152101 |
Naïve human embryonic stem cells can give rise to cells with trophoblast-like transcriptome and methylome [RNA-Seq] |
| GSE152104 |
Naïve human embryonic stem cells can give rise to cells with trophoblast-like transcriptome and methylome |
|
| Relations |
| BioSample |
SAMN15186699 |
| SRA |
SRX8509673 |
