|
| Status |
Public on Dec 20, 2020 |
| Title |
Ba/F3_Hdac1-ChIP-2 |
| Sample type |
SRA |
| |
|
| Source name |
Ba/F3 cells
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Ba/F3 cells
plasmids: (MSCV-IRES-mCherry)pMIC-mPhf23-flag
replicates: Hdac1_rep2
antibody: Hdac1(CST, 34589)
|
| Treatment protocol |
Ba/F3 cells were transducted with mCherry labelled and flag tagged mouse Phf23 (pMIC-mPhf23-flag) through retroviral infection. 48h after infection, the mCherry positive cells were sorted out by FACS AriaIII and cultured in vitro.
|
| Growth protocol |
Ba/F3 cells were cultured in RPMI 1640 medium supplemented with 10% FBS, 1% Pen/Strep and 2ng/ml mouse IL3.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
The ChIP DNA was purified with Qiagen MinElute PCR Purification Kit
ChIP DNA was prepared according to the protocol provided in Methods.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
ChIP-seq reads were aligned to the mm10 genome assembly using STAR_2.6.0a
Bam files were transformed to bigwig files by Deeptools
peaks were called using macs2 2.1.1
processed data files format and content: bigWig and peak files
|
| |
|
| Submission date |
Feb 12, 2020 |
| Last update date |
Dec 20, 2020 |
| Contact name |
Xaingyu Pan |
| E-mail(s) |
pangxueyu233@outlook.com
|
| Organization name |
Sichuan University
|
| Department |
State Key Laboratory of Biotherapy, West China Hospital, Sihcuan University.
|
| Lab |
Chen & Liu Lab
|
| Street address |
No.17 Renming road section3
|
| City |
Chengdu, Cihna |
| State/province |
Sichuan |
| ZIP/Postal code |
610041 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE145190 |
An epigenetic mechanism underlying chromosome 17p deletion-driven tumorigenesis |
|
| Relations |
| BioSample |
SAMN14088602 |
| SRA |
SRX7713736 |
