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Status |
Public on Jan 19, 2019 |
Title |
Leydig_2_RNA-seq |
Sample type |
SRA |
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Source name |
Leydig cells
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Organism |
Mus musculus |
Characteristics |
cell type: Leydig cells cell subtype: Primary isolated cells strain: C57BL/6J
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Treatment protocol |
No treatment
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Growth protocol |
The isolated primary cells were cultured in DMEM/F12 containing 10% fetal bovine serum (FBS) at 37°C with 5% CO2.
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Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using TRNzol (Tiangen, Beijing, China). RNA libraries were prepared for sequencing using standard BGI protocols
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Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
BGISEQ-500 |
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Data processing |
SOAPnuke: v1.5.2, -l 15 -q 0.2 -n 0.05 HISAT2: v2.0.4, --phred64 --sensitive --no-discordant --no-mixed -I 1 -X 1000 Bowtie2: v2.2.5, -q --phred64 --sensitive --dpad 0 --gbar 99999999 --mp 1,1 --np 1 --score-min L,0,-0.1 -p 16 -k 200 RSEM: v1.2.12, default DEGseq: Fold Change >= 2 and Adjusted Pvalue <= 0.001 Genome_build: mm10 Supplementary_files_format_and_content: FPKMs
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Submission date |
Jan 18, 2019 |
Last update date |
Jan 20, 2019 |
Contact name |
Su-Ren Chen |
E-mail(s) |
chensuren@ioz.ac.cn
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Organization name |
Institute of Zoology, Chinese Academy of Sciences
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Department |
State Key Laboratory of Stem Cell and Reproductive Biology
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Street address |
1Beichen West Road, Chaoyang District
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City |
Beijing |
ZIP/Postal code |
100101 |
Country |
China |
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Platform ID |
GPL23479 |
Series (2) |
GSE125303 |
RNA-Seq of testicular peritubular myoid cells, other testicular cells, and other tissue smooth muscle-like cells |
GSE125304 |
RNA-seq and miRNA-seq of testicular peritubular myoid cells, other testicular cells, and other tissue smooth muscle-like cells |
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Relations |
BioSample |
SAMN10769178 |
SRA |
SRX5260770 |
Supplementary data files not provided |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
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