|
| Status |
Public on Apr 04, 2024 |
| Title |
DNA-meIP-HAP1-M-IFN-lib4-922-2021_S2_L004 |
| Sample type |
SRA |
| |
|
| Source name |
HAP1
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HAP1
cell type: HAP1-Parent
chip antibody: C02010041 Diagenode
treatment: IFNγ
treatment time_(hr): 24
|
| Growth protocol |
HAP1 control cells and MAZ KO cells are cultured in IMDM with 10% FBS and 1% Pen/Strep. K562 control cells and MAZ knocking down cells were grown in RPMI 1640 medium (Invitrogen) supplemented with 10% fetal bovine serum, 10 mM HEPES (pH 7.3), and 1% penicillin-streptomycin.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted using the Quick-DNA MicroPrep kit following manufacturer's instructions.
MEDIP-seq was performed using the MagMeDIP-seq Package from Diagenode in HAP1 control and HAP1 MAZ knockout cells following manufacturer's instructions.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to hg19 whole genome using bowtie2. Peaks were called using MACS2. Bigwig files were generated with Deeptools.
Assembly: hg19
Supplementary files format and content: bigWig
Library strategy: MEDIP-seq
|
| |
|
| Submission date |
Oct 08, 2022 |
| Last update date |
Apr 04, 2024 |
| Contact name |
Gary Felsenfeld |
| E-mail(s) |
txiao2015@gmail.com
|
| Organization name |
NIH
|
| Lab |
LMB
|
| Street address |
9000 Rockville Pike
|
| City |
Bethesda |
| ZIP/Postal code |
20892 |
| Country |
USA |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE215082 |
The Myc-Associated Zinc Finger Protein (MAZ) controls STAT1-mediated antiviral response by reshaping epigenome [MeDIP-Seq] |
| GSE215083 |
The Myc-Associated Zinc Finger Protein (MAZ) controls STAT1-mediated antiviral response by reshaping epigenome |
|
| Relations |
| BioSample |
SAMN31215657 |
| SRA |
SRX17833906 |
