|
| Status |
Public on Dec 01, 2019 |
| Title |
ChIP-Seq of H3K27ac in IgE-treated replicate 1 |
| Sample type |
SRA |
| |
|
| Source name |
peripheral blood-derived mast cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: peripheral blood-derived mast cells
passages: >98% FcεRI+ CD117+, 10 weeks
source: CD34+ derived
chip antibody: H3K27Ac (ab4729)
|
| Treatment protocol |
Human myeloma IgE (0.5 μg/ml) treatment for 18 h, anti-IgE (1 μg/ml) treatment for 2h after IgE treatment
|
| Growth protocol |
Peripheral blood-derived CD34+ cells were cultured with 5 ng/ml hIL-3, 100 ng/ml hSCF and 50 ng/ml hIL-6 for 3 weeks. Subsequently,100 ng/ml hSCF and 50 ng/ml hIL-6 were used for additional 7 weeks
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
CHIP-seq libraries were prepared with NEB NEXT Ultra kit using 10 ng starting material
Single read - Illumina nextseq 500
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
IgE_1_H3K27ac
|
| Data processing |
Basecalls performed using CASAVA
ChIP-seq reads were aligned to the hg19 genome assembly using bowtie2 version 2.2.6 with the following configurations : -v 2 -m 1 -k 1 --best
Peak calling was done by MACS 2.0.10 with default settings
Genome_build: hg19
Supplementary_files_format_and_content: broadpeak files were generated by MACS 2.0.10
|
| |
|
| Submission date |
Nov 24, 2017 |
| Last update date |
Dec 01, 2019 |
| Contact name |
Jingxian Zhang |
| E-mail(s) |
zhangjingxian.nus@gmail.com
|
| Organization name |
Institute of Molecular and Cell Biology (IMCB), A-Star, Singapore
|
| Department |
IMCB
|
| Street address |
61 Biopolis Drive Proteos
|
| City |
Singapore |
| State/province |
Singpaore |
| ZIP/Postal code |
138673 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL18573 |
| Series (2) |
| GSE75527 |
Landscape of human mast cell chromatin: a rich resource for identification of novel mediators and genetic drivers of allergic and inflammatory diseases |
| GSE107315 |
Epigenetic profiling of human CD34+ derived mast cells [ChIP-Seq] |
|
| Relations |
| BioSample |
SAMN08097279 |
| SRA |
SRX3421773 |
