|
| Status |
Public on Dec 11, 2014 |
| Title |
pDC H3K4me3 |
| Sample type |
SRA |
| |
|
| Source name |
pdc_k4me3
|
| Organism |
Mus musculus |
| Characteristics |
cell type: pDC
tissue: Bone marrow
strain: C57BL/6
chip antibody: H3K4me3
|
| Growth protocol |
Bone marrows were extracted from femora and tibiae of C57BL/6J female mice (6 to 10 weeks old), growth in presence of GM-CSF (for moDC) or Flt3L (for pDC).
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Cells were fixated, lyzed and nuclei were sonicated. Sonicated nuclei were mixed with protein G magnetic dynabeads coupled to target antibbody.
Libraries were prepared for sequencing using a method developed at Dr. Ido Amit's lab, Weizmann Institute of Science
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Basecalls performed using CASAVA version 1.4
alignment using bowtie 0.12 using default parameters
tdf command - igvtools count -w 5 -e 200
Genome_build: mm9
Supplementary_files_format_and_content: tdf
|
| |
|
| Submission date |
Oct 24, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Ido Amit |
| E-mail(s) |
ido.amit@weizmann.ac.il
|
| Phone |
972-8-9343338
|
| Organization name |
Weizmann Institute of Science
|
| Department |
Immunology
|
| Street address |
234 Herzl st.
|
| City |
Rehovot |
| ZIP/Postal code |
760001 |
| Country |
Israel |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE62702 |
A negative feedback loop of transcription factors specifies alternative dendritic cell chromatin states (ChIP-Seq) |
|
| Relations |
| BioSample |
SAMN03142912 |
| SRA |
SRX742824 |
