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Sample GSM5511165 Query DataSets for GSM5511165
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
 
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

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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