|
| Status |
Public on Jun 15, 2016 |
| Title |
RNA-Seq 8-cell KD Nr5a2 rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Preimplantation embryo
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6N x DBA/2N
developmental stage: 8-cell
|
| Growth protocol |
Knockdown siRNA injected embryos were cultured in CZB medium containing glutamine at 37℃ under 5% CO2 in air.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
After removing the zona pellucida, embryonic cells were washed with PBS and incubated in lysis buffer.
RNA-Seq libraries were prepared using Smart-Seq2 protocol with slightly modification
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Description |
nr5a2_8cell_KD_fpkm.txt.gz
|
| Data processing |
Basecalls performed using CASAVA version 1.8
RNA-Seq reads were aligned to the mm9 genome assembly using STAR version 2.4.0, then replicates were merged together, and transcript abundance (FPKM) were calculated based on Refseq annotation using
Genome_build: mm9
Supplementary_files_format_and_content: fpkm
|
| |
|
| Submission date |
Nov 09, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Wei Xie |
| E-mail(s) |
xiewei121@tsinghua.edu.cn
|
| Organization name |
Tsinghua University
|
| Street address |
zhongguancun beidajie
|
| City |
Beijing |
| ZIP/Postal code |
100086 |
| Country |
China |
| |
|
| Platform ID |
GPL18480 |
| Series (2) |
| GSE66390 |
The landscape of accessible chromatin in mammalian pre-implantation embryos |
| GSE66582 |
The landscape of accessible chromatin in mammalian pre-implantation embryos (RNA-Seq) |
|
| Relations |
| BioSample |
SAMN04252377 |
| SRA |
SRX1424871 |
