|
| Status |
Public on Mar 08, 2021 |
| Title |
A375-NC-EZH2 |
| Sample type |
SRA |
| |
|
| Source name |
A375 cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: A375
treatment: untreated
chip antibody: EZH2
|
| Treatment protocol |
Infection with shRNA against USP7 were performed using polybrene reagent according to the manufacturer's insturctions.
|
| Growth protocol |
A375 cells were cultured in DMEM medium supplemented with 10% FBS.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Approximately 5X107 cells were used for each ChIP-seq assay. The chromatin DNA precipitated by polyclonal antibodies against USP7, EZH2, H3K27me3 or H2BK120ub1. The DNA samples were purified with the Qiagen PCR purification kit before in-depth whole genome DNA sequencing was performed by CapitalBio Corporation (Beijing, China).
The raw sequencing image data were examined by the Illumina analysis pipeline, aligned to the unmasked human reference genome (hg19) using Bowtie2, and further analyzed by MACS (Model-based Analysis for ChIP-seq).
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
ChIP-seq reads quality control performed using FastQC v0.11.5 and cutadapt v1.8.3
ChIP-seq reads were aligned to the hg19 genome assembly using Bowtie2
ChIP-seq peaks were called using macs2
Genome_build: hg19
Supplementary_files_format_and_content: ChIP-seq bed files were generated using macs2
|
| |
|
| Submission date |
Feb 04, 2021 |
| Last update date |
Mar 08, 2021 |
| Contact name |
Lin Shan |
| E-mail(s) |
shanlin@ccmu.edu.cn
|
| Phone |
86-10-83950219
|
| Organization name |
Capital Medical University
|
| Street address |
10 You’anmen Outer West 1st Street
|
| City |
Beijing |
| ZIP/Postal code |
100094 |
| Country |
China |
| |
|
| Platform ID |
GPL20795 |
| Series (1) |
| GSE133834 |
Genome-wide maps of chromatin state in A375 cells or in normal or USP7 knockdown A375 cells . |
|
| Relations |
| BioSample |
SAMN17776183 |
| SRA |
SRX10020169 |
