|
| Status |
Public on Nov 16, 2022 |
| Title |
Nat10_sKO_SPG_4 |
| Sample type |
SRA |
| |
|
| Source name |
Spermatogonia
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: spermatogonia
genotype: Stra8-cre_Nat10_KO
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Spermatogenic cells were collected with Fluorescence activated Cell Sorting (FACS) and Spermatocytes were flash frozen on dry ice, and RNA was harvested using Trizol reagent.
Sequencing libraries were constructed from 500 pg of amplified cDNA using TruePrep DNA Library Prep Kit V2 for Illumina (Vazyme, TD503) according to manufacturer’s instructions. Barcoded libraries were pooled and sequenced on the Illumina HiSeq X Ten platform with 150 bp paired-end reads
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
RNA-Seq was performed with biological replicates for all samples.
Raw reads were trimmed to 50 bp and mapped to the mouse genome (mm9) and ERCC spike-in sequences with Tophat v2.1.1.
Only uniquely mapped reads were subsequently assembled into transcripts guided by the reference annotation (UCSC gene models) with Cufflinks v2.2.1.
Raw counts were aquired by using htseq v0.11.2, and different expressional genes were analized by DEseq2 v=3.11.
Expression level was further normalized with the ERCC spike-in.
Genome_build: mm10
Supplementary_files_format_and_content: Tab-delimited text files include raw count values of all RNA-seq samples
|
| |
|
| Submission date |
Dec 17, 2021 |
| Last update date |
Nov 16, 2022 |
| Contact name |
Heng-yu Fan |
| E-mail(s) |
Fanhengyu_lab@163.com, 21907079@zju.edu.cn
|
| Organization name |
Life Sciences Institute
|
| Lab |
Fan heng-yu
|
| Street address |
Yuhangtang Road
|
| City |
Hangzhou |
| State/province |
Zhejiang |
| ZIP/Postal code |
310058 |
| Country |
China |
| |
|
| Platform ID |
GPL21273 |
| Series (1) |
| GSE191105 |
NAT10-mediated N4-Acetylcytidine is Required for Spermatogenesis and Male Fertility |
|
| Relations |
| BioSample |
SAMN24149189 |
| SRA |
SRX13435504 |
