|
| Status |
Public on Sep 30, 2020 |
| Title |
Testis, M1-1 |
| Sample type |
SRA |
| |
|
| Source name |
M1-1_Testis
|
| Organism |
Mus musculus |
| Characteristics |
strain: ICR
tissue: Testis
treatment: M1
genotype: M1 knockdown
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Mouse sperm samples were isolated for RNA. Then RNA samples were sequenced.
Total RNA was used for the library.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
The group information is prefixed with M1-1 in the column of processed data file
|
| Data processing |
The reads were mapped to reference gene using SOAPaligner (Version 2.20) with a maximum of two nucleotide mismatch allowed at the parameters of “-m 0 -x 1000 -s 40 -l 35 -v 3 -r 2”. The read number of each gene was transformed into RPKM (Reads Per Kilo bases per Million reads), and then differently expressed genes were identified by the DEGseq package using the MARS (MA-plot-based method with Random Sampling model) method. The threshold was set as FDR≤ 0.001 and an absolute value of log2Ratio≥1 to judge the significance of gene expression difference.
Genome_build: mm10
Supplementary_files_format_and_content: All_geneFPKM.csv
|
| |
|
| Submission date |
Sep 18, 2019 |
| Last update date |
Sep 30, 2020 |
| Contact name |
Yong Zhao |
| E-mail(s) |
yzhao818@hotmail.com
|
| Phone |
86-18661613617
|
| Organization name |
Qingdao Agricultural University
|
| Department |
College of Life Sciences
|
| Lab |
B604
|
| Street address |
700 Changcheng Road
|
| City |
Qingdao |
| State/province |
Shandong |
| ZIP/Postal code |
266109 |
| Country |
China |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE137628 |
RNA-seq of mouse testis samples from different treatment groups |
|
| Relations |
| BioSample |
SAMN12780005 |
| SRA |
SRX6864184 |
