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Sample GSM4459822 Query DataSets for GSM4459822
Status Public on May 13, 2020
Title MT_siDpf3a_rep2
Sample type SRA
 
Source name muscle
Organism Mus musculus
Characteristics cell line: C2C12
tissue: muscle
cell type: myotube
treatment: siDpf3a
Treatment protocol C2C12 cells were transfected with siRNAs against Hrp2/Dpf3a/Brg1 or control.
Growth protocol C2C12 cells were cultured in DMEM medium supplemented with 20% fetal bovine serum (FBS).
Extracted molecule total RNA
Extraction protocol Total RNA isolation was performed using TRIzol (Invitrogen). Total RNAs from cultured cells were subjected to Oligo dT selection and adaptor ligation.
Construction of RNA-seq library was completed by BGI company (Shenzhen,China).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model BGISEQ-500
 
Data processing FastQC (version 0.11.8) was used to do quanlity control checks on clean reads.
The expression of genes was quantified by Salmon (version 0.8.0) with default parameters.
DEGs (differential expressed genes) between samples were generated by DESeq2.
Genome_build: mm10
Supplementary_files_format_and_content: TPM for each sample.
 
Submission date Apr 08, 2020
Last update date May 14, 2020
Contact name Bingxue Lan
Organization name Tianjin Medical University
Street address Qixiangtai road
City Tianjin
ZIP/Postal code 300070
Country China
 
Platform ID GPL23479
Series (2)
GSE141407 HRP2-DPF3a-BAF complex coordinates histone modification and chromatin remodeling to regulate myogenic gene transcription
GSE148294 HRP2-DPF3a-BAF complex coordinates histone modification and chromatin remodeling to regulate myogenic gene transcription [RNA-Seq]
Relations
BioSample SAMN14558835
SRA SRX8082187

Supplementary file Size Download File type/resource
GSM4459822_MT_siDpf3a_rep2.txt.gz 543.2 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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