|
| Status |
Public on Apr 25, 2021 |
| Title |
Ctrl-4_rnaseq |
| Sample type |
SRA |
| |
|
| Source name |
Mouse Oocytes
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: MII oocytes
genotype/variation: Ctrl
|
| Treatment protocol |
Female mice at six- to eight-weeks-old were injected with 10 IU of Pregnant Mare Serum Gonadotropin (PMSG) for 48 h. Meiosis II oocytes were collected 13 hour post human chorionic gonadotropin (hCG) injection from females previously primed with PMSG.
|
| Growth protocol |
Ago2 cKO (Ago2 loxP/loxP,Zp3-cre) and Control(Ago2 loxP/+) female mice were bred at six- to eight-weeks-old.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Single oocyte was picked in PCR tube and used for library construction.
Single-cell RNA-seq libraries were generated using Smart-seq2 (Simone Picelli,2014) .
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Illumina bcl2fastq-1.8.4 conversion software was used for basecalling.
After sequencing of single-cell RNA-seq libraries, adapters and low-qaulity bases were removed by Trimmomatic 0.36 (Bolger et al., 2014).
After filtering, paired-end reads were aligned to the mouse reference genome (mm9) using HISAT2 (Kim et al., 2015) with default parameters.
The uniquely mapped reads count matrix were subject to DESeq2 (Michael, et al., 2014) to identify differential expressed genes.
Genome_build: mm9
Supplementary_files_format_and_content: Bigwig files were generated using bamCoverage.
|
| |
|
| Submission date |
Feb 20, 2020 |
| Last update date |
Apr 27, 2021 |
| Contact name |
Yuanchao Xue |
| E-mail(s) |
[email protected]
|
| Organization name |
Chinese Academy of Sciences
|
| Department |
Institute of Biophysics
|
| Lab |
Key Laboratory of RNA Biology
|
| Street address |
Datun Road #15
|
| City |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (1) |
| GSE137925 |
Global Profiling of RNA-Binding Protein Target Sites by LACE-seq |
|
| Relations |
| BioSample |
SAMN14145368 |
| SRA |
SRX7759290 |
