|
| Status |
Public on May 19, 2017 |
| Title |
Spermatocytes from 5-month Zmym3 WT mice |
| Sample type |
SRA |
| |
|
| Source name |
testes
|
| Organism |
Mus musculus |
| Characteristics |
strain: CBA/C57
gender: male
development stage: 5-month-old
genotype: wild type
|
| Treatment protocol |
Zmym3 WT and KO SSC were cultured on laminin-coated dishes. c-KIT+ cells were induced from both WT and KO SSCs by 100 nM RA 36 h after RA treatment. For collecting the spermatocytes, the testes were firstly digested into single cells. The cells were firstly FACS sorted to collect tetraploid cells which were further sorted into two populations based on their forward scatter (FSC) and side scatter (SSC) features. The population of larger sizes consisted mainly of pachytene spermatocytes of about 80% purity based on the co-immunostaining of SYCP3 and rH2AX were collected.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from mouse testis cells and mSSCs was extracted using Trizol. The RNA libraries were constructed by Illumina library preparation protocols. High-throughput sequencing was performed on HiSeq4000/HiSeq X 10.
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
The sequencing reads were mapped to the mouse genome (UCSC mm9) by TopHat (v2.0.6).
The expression level of mRNAs was represented by FPKM calculated by Cufflinks (v2.0.2).
The differentially expressed genes were identified with Cuffdiff.
Genome_build: UCSC mm9
Supplementary_files_format_and_content: The expression level of mRNAs.
|
| |
|
| Submission date |
May 18, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Chunsheng Han |
| E-mail(s) |
hancs@ioz.ac.cn
|
| Phone |
86-10-64807105
|
| Organization name |
Chinese Academy of Sciences
|
| Department |
Institute of Zoology
|
| Lab |
State Key Laboratory of Reproductive Biology
|
| Street address |
1-5 Beichen West Road, Chaoyang District
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (1) |
| GSE99076 |
Gene knockout of Zmym3 in mice arrests spermatogenesis at meiotic metaphase with defects in spindle assembly checkpoint |
|
| Relations |
| BioSample |
SAMN07141710 |
| SRA |
SRX2834263 |
