|
| Status |
Public on Dec 24, 2019 |
| Title |
C2C12_H3K27Ac_DM_shCas |
| Sample type |
SRA |
| |
|
| Source name |
C2C12_H3K27Ac_DM_shCas
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Differentiated C2C12
chip antibody: H3K27ac (Abcam, ab4729)
genotype: shCas
|
| Treatment protocol |
ChIP experiment was performed after shCtrl and shCasz1 C2C12 cells being cultured in differentiation medium (DMEM containing 2% horse serum) for 48 hr.
|
| Growth protocol |
C2C12 cells are cultured in RPMI 1640 containing 10% FBS.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody following the Active Motif's instructions of the ChIP-IT High Sensitivity Kit.
Libraries were prepared according to Illumina's TruSeq ChIP Sample Preparation Guide.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Basecalls performed using CASAVA version 1.4
ChIP-seq reads were aligned to the mm10 genome using bwa and then use the MACS2 for peak calling
Genome_build: mm10
Supplementary_files_format_and_content: bigWig files were generated using deeptools. The coverage is calculated as the number of reads per bin.
|
| |
|
| Submission date |
Feb 06, 2019 |
| Last update date |
Dec 26, 2019 |
| Contact name |
Jack Shern |
| Organization name |
NCI
|
| Lab |
POB
|
| Street address |
10 Center drive
|
| City |
bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE126141 |
The affect of loss of Casz1 in C2C12 cells on super-enhancers |
| GSE126147 |
CASZ1 directly regulates expression of myogenic genes through regional epigenetic modifications to induce muscle and rhabdomyosarcoma cell differentiation |
|
| Relations |
| BioSample |
SAMN10880542 |
| SRA |
SRX5341958 |
