|
| Status |
Public on Jun 28, 2023 |
| Title |
PB-TSC-24h-Dox-2 |
| Sample type |
SRA |
| |
|
| Source name |
Mouse trophoblast stem cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Placenta
genotype: Set8 KO
|
| Treatment protocol |
mTSCs were treated with or without Dox for 48h
|
| Growth protocol |
Advanced DMEM/F12 supplemented with: 64mg/l L-ascorbic acid-2-phosphate magnesium, 1% ITS-X supplement,2mM L-glutamine,0.5% B27,0.05%BSA,1% P/S,25ng/ml FGF4,2ng/ml TGF-β,1μg/ml Heparin
|
| Extracted molecule |
total RNA |
| Extraction protocol |
mTSCs were harvested and extracted using Trizol reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
DNBSEQ-G400 |
| |
|
| Description |
Set8KO_mTSC_exp_lnc_06242020.xlsx
|
| Data processing |
Zebracall software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm10 whole genome using Tophat with default parameters
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using EdgeR package of R.
Genome_build: mm10
|
| |
|
| Submission date |
Feb 06, 2022 |
| Last update date |
Jun 28, 2023 |
| Contact name |
Jinhua Lu |
| E-mail(s) |
jinhua888@126.com
|
| Organization name |
Xiamen University
|
| Street address |
No. 4221, Xiangan Road, Xiangan District, Xiamen city
|
| City |
Xiamen |
| ZIP/Postal code |
361000 |
| Country |
China |
| |
|
| Platform ID |
GPL28457 |
| Series (1) |
| GSE196224 |
Gene expression in the mTSCs of WT and Pr-set7 KO mTSCs |
|
| Relations |
| BioSample |
SAMN25690360 |
| SRA |
SRX14060266 |
