|
Status |
Public on Sep 14, 2021 |
Title |
Tamo_2 |
Sample type |
SRA |
|
|
Source name |
P815 mouse mastocytoma cell line
|
Organism |
Mus musculus |
Characteristics |
cell type: mouse mastocytoma cell cell line: P815 treatment: treated with tamoxifen for 24 hours
|
Treatment protocol |
P815 cells (three duplicate samples in each group) were transfected with ESR1-specific shRNA vectors (SH) or the negative control vectors (NC) and treated with β-estradiol for 24 hours. Other replicates were β-estradiol treatment with the administration of estrogen receptor inhibitors Tamoxifen or ICI-182780 for 24 hours.
|
Growth protocol |
Mouse mastocytoma cell line P815 was cultured with RPMI-1640 (Gibco, USA) supplemented with 10% fetal bovine serum (FBS).
|
Extracted molecule |
total RNA |
Extraction protocol |
total RNA was extracted by TRIzol RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Description |
Tamo_2
|
Data processing |
RNA integrity was evaluated using the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA). The samples with RNA Integrity Number (RIN) ≥ 7 were subjected to the subsequent analysis The libraries were constructed using TruSeq Stranded mRNA LTSample Prep Kit (Illumina, San Diego, CA, USA) according to the manufacturer’s instructions. Then these libraries were sequenced on the Illumina sequencing platform ( Illumina Novaseq 6000) and 150bp paired-end reads were generated. Cutadapt software was used to remove the reads that contained adaptor contamination. The reads containing poly-N and the low quality reads were removed to obtain the clean reads. Then the clean reads were mapped to reference genome using hisat2 Genome_build: GRCm38 Supplementary_files_format_and_content: tab-delimited text files include read count and FPKM values for each Sample
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|
|
Submission date |
Aug 10, 2021 |
Last update date |
Sep 14, 2021 |
Contact name |
Xinyue Guo |
E-mail(s) |
guo_zzzzz@outlook.com
|
Organization name |
Women's hospital, School of Medicine, Zhejiang University
|
Department |
Department of Gynecology
|
Street address |
1 Xueshi Road
|
City |
Hangzhou |
State/province |
Zhejiang |
ZIP/Postal code |
310006 |
Country |
China |
|
|
Platform ID |
GPL24247 |
Series (1) |
GSE181773 |
RNA-sequencing in mouse mastocytoma cell line P815 |
|
Relations |
BioSample |
SAMN20694799 |
SRA |
SRX11705309 |