|
| Status |
Public on May 13, 2020 |
| Title |
MT_siDpf3a_rep1 |
| 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 |
SAMN14558836 |
| SRA |
SRX8082186 |
