|
| Status |
Public on Dec 19, 2020 |
| Title |
senescent cells - H3K9me3_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
foreskin fibroblast
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: BJ
treatment: bleomycin (40 ug/ml; Biorbyt) for 2 hours and culture for 12 days
cell state: S
chip antibody: H3K9me3
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP experiment was carried out as previously described (Hawkins et al., 2010) with H3K9me3 (Abcam, ab8898) and H3K27m3(CST, 9733s) antibodies.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
mapping to hg19 with bowtie2
deduplication by Picard
macs2 callpeak --SPMR, and get pileup files
Genome_build: hg19
Supplementary_files_format_and_content: bigwig, normalized pileup files
|
| |
|
| Submission date |
Dec 18, 2020 |
| Last update date |
Dec 22, 2020 |
| Contact name |
Xianglin Zhang |
| E-mail(s) |
xl-zhang15@mails.tsinghua.edu.cn
|
| Phone |
15101669184
|
| Organization name |
Tsinghua University
|
| Street address |
Haidian District
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE133292 |
The loss of heterochromatin is associated with multiscale three-dimensional genome reorganization and aberrant transcription during cellular senescence |
|
| Relations |
| BioSample |
SAMN17117899 |
| SRA |
SRX9704390 |
