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Status |
Public on Dec 01, 2019 |
Title |
ChIP-Seq of H3K4M1 in BMMC with DNP-BSA (50 ng/ml) for 2h rep 2 |
Sample type |
SRA |
|
|
Source name |
BMMCs_DNP-BSA
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 cell type: Bone marrow derived mast cells (BMMCs) passages: >95% FcER1+ CD117+ treatment group: treated with DNP-BSA (50 ng/ml) for 2h chip antibody: H3K4me1 chip antibody vendor: Abcam chip antibody cat. #: ab8895
|
Treatment protocol |
IgE (0.5 ug/ml) treatment for 18 h, Ag (50 ng/ml) treatment for 2h after IgE treatment
|
Growth protocol |
10 ng/ml IL-3 and 10 ng/ml SCF for 4-6 weeks after bone marrow isolation
|
Extracted molecule |
genomic DNA |
Extraction protocol |
CHIP-seq libraries were prepared with NEB NEXT Ultra kit using 10 ng starting material Single read - Illumina
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|
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Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina NextSeq 500 |
|
|
Data processing |
Basecalls performed using CASAVA ChIP-seq reads were aligned to the mm9 genome assembly using bowtie version 0.12.7 with the following configurations : -v 2 -m 1 -p 2 --best --strata --quiet –solexa1.3-quals Peak calling was done by MACS 2.0.10 with default settings Genome_build: mm9 Supplementary_files_format_and_content: broadpeak files were generated by MACS 2.0.10
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|
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Submission date |
Nov 30, 2015 |
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 |
GPL19057 |
Series (2) |
GSE75525 |
Epigenetic profiling of mouse bone marrow derived mast cells (BMMCs) [ChIP-seq] |
GSE111547 |
Landscape of mouse mast cell chromatin: a rich resource for identification of novel mediators and genetic drivers of allergic and inflammatory diseases |
|
Relations |
BioSample |
SAMN04302820 |
SRA |
SRX1456417 |