|
| Status |
Public on Jun 08, 2020 |
| Title |
P3_DKO_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
P3_DKO_postnatal male germ cells
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6
genotype: Vasa-Cre; Jmjd1a-/-; Jmjd1b-/-
age: P3
tissue: testis
cell type: Postnatal male germ cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using All Prep DNA/RNA Micro Kit (Qiagen). cDNA library was prepared from total RNA using TruSeq Stranded mRNA LT Sample Prep Kit (Illumina).
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence, then mapped to mm10 whole genome using TopHat2 v2.1.1 with default parameters.
Reads Per Kilobase of exon per Megabase of library size (RPKM) were estimated using Cufflinks v2.1.1.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Apr 03, 2020 |
| Last update date |
May 07, 2025 |
| Contact name |
Ryo Maeda |
| E-mail(s) |
rmaeda.fbs@osaka-u.ac.jp
|
| Organization name |
The University of Osaka
|
| Street address |
Yamadaoka 1-3
|
| City |
Suita-shi, Osaka |
| ZIP/Postal code |
565-0871 |
| Country |
Japan |
| |
|
| Platform ID |
GPL13112 |
| Series (2) |
| GSE148053 |
Total RNA sequencing of postnatal male germ cells |
| GSE148055 |
RNA-seq and H3K9me2 ChIP-seq of postnatal male germ cells |
|
| Relations |
| BioSample |
SAMN14533678 |
| SRA |
SRX8053155 |
