|
| Status |
Public on May 01, 2019 |
| Title |
RNA_1C(48h)_Setd2_KO_RNA_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
embryo
|
| Organism |
Mus musculus |
| Characteristics |
tissue: embryo
developmental stage: 1C
genotype: Setd2_KO
|
| Treatment protocol |
8-week-old females were intraperitoneally injected with PMSG and hCG. Oocytes and embryos were harvested in M2 medium at following time point after hCG: MII oocytes, 13h; Zygotes 30 h; late-two cell embryos, 47 h; blastocyst, 98 h. Germinal versicle stage (GV) oocytes were harvested at 48 h after PMSG. For D7, D10, D14 oocytes, corresponding postnatal female mouse were sacrificed and oocytes were harvested in M2.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNA-seq libraries were generated following the Smart-seq2 protocol with minor modification (Picelli et al., 2014).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Description |
processed data file:
Setd2_KO_RNA_FPKM.txt.gz
|
| Data processing |
RNA-seq datasets were mapped to the mouse mm9 reference genome by Tophat 2.0.11. Gene expression was then calculated according to refFlat database by cufflinks 2.0.2.
Genome_build: mm9
Supplementary_files_format_and_content: The RNA FPKM txt file contains FPKM value for each sample.
|
| |
|
| Submission date |
Apr 06, 2018 |
| Last update date |
May 01, 2019 |
| Contact name |
Wei Xie |
| E-mail(s) |
xiewei121@tsinghua.edu.cn
|
| Organization name |
Tsinghua University
|
| Department |
School of Life Science
|
| Street address |
Haidian District
|
| City |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (2) |
| GSE112832 |
SETD2 regulates the maternal epigenome, genomic imprinting and embryonic development [RNA-seq] |
| GSE112835 |
SETD2 regulates the maternal epigenome, genomic imprinting and embryonic development |
|
| Relations |
| BioSample |
SAMN08887562 |
| SRA |
SRX3899472 |
