|
| Status |
Public on May 01, 2023 |
| Title |
HEK293T, H3K9ac_EV |
| Sample type |
SRA |
| |
|
| Source name |
HEK293T
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: HEK293T
cell type: human embryonic kidney
genotype: WT
treatment: overexpress FLAG empty vector for 24h
|
| Treatment protocol |
HEK293T were transfected using calcium phosphate cell transfection kit
|
| Growth protocol |
HEK293T cell lines were maintained in DMEM supplemented with 10% fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% CO2 at 37C
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cells were fixed with 1% formaldehyde for 10 minutes. After quenching and cell lysis, chromatin was sonicated using a ME220 focused-ultrasonicator (Covaris).
VAHTS Universal DNA Library Prep Kit for MGI (NDM607)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
MGISEQ-2000RS |
| |
|
| Data processing |
The sequenced reads (FATAQ format) are mapped to Homo Sapiens(hg38) genomes using Bowtie2(v2.3.5.1).
Mapped reads are normalized by RPGC provided by command bamCoverage from deepTools (v3.5.1).
Peaks were called uing MACS (v2.2.7.1) bdgdiff
Supplementary files format and content: hg38
Supplementary files format and content: bigWig,bed
|
| |
|
| Submission date |
Dec 11, 2022 |
| Last update date |
May 02, 2023 |
| Contact name |
Lu Zhang |
| Organization name |
YunNan University
|
| Street address |
WuJiaYing Street
|
| City |
KunMing |
| State/province |
YunNan |
| ZIP/Postal code |
650500 |
| Country |
China |
| |
|
| Platform ID |
GPL30209 |
| Series (2) |
| GSE220676 |
Ribosomal frameshifting at normal codon repeats recodes functional chimeric proteins in human[ChIP-seq] |
| GSE220678 |
Ribosomal frameshifting at normal codon repeats recodes functional chimeric proteins in human. |
|
| Relations |
| BioSample |
SAMN32154803 |
| SRA |
SRX18639917 |
