|
| Status |
Public on Aug 20, 2020 |
| Title |
Adult HPC H3K27me3-1 [2893_1_A] |
| Sample type |
SRA |
| |
|
| Source name |
Adult HPC H3K27me3
|
| Organism |
Mus musculus |
| Characteristics |
age: 8 week old
cell type: Hematopoietic Progenitor Cell
histone_mark: H3K27ac
|
| Treatment protocol |
N/A
|
| Growth protocol |
N/A
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
HSCs and HPCs were soted and then fixed for chromatin isolation per Schmidl et l., Nature Methods 10:963.
Chipmentation - Chromatin isolation with the indicated antibody followed by tagmentation with Tn5 as per Schmidl et l., Nature Methods 10:963.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
processed data in series file:
adult_HPC_k27_2893.fc.signal.bigwig
adult_HPC_k27_2893.filt.narrowPeak.gz
|
| Data processing |
Sequencing reads were demultiplexed and aligned to mouse genome (mm10) by novoalign (versoin 3.04.06)
Signal strength relative to the control samples were generated using MACS2.
Optimal set of peaks were generated using the Kundaje lab AQUAS TF and histone ChIP-seq pipeline (https://github.com/kundajelab/chipseq_pipeline version 0.33)
Genome_build: GRCm38/mm10
Supplementary_files_format_and_content: bigwig, narrowPeak
|
| |
|
| Submission date |
Jun 29, 2020 |
| Last update date |
Aug 20, 2020 |
| Contact name |
Jeffery Magee |
| E-mail(s) |
magee_j@kids.wustl.edu
|
| Organization name |
Washington University School of Medicine
|
| Department |
Internal Medicine - Cardiovascular Division
|
| Street address |
660 S Euclid Ave.
|
| City |
St Louis |
| State/province |
Missouri |
| ZIP/Postal code |
63110 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE128760 |
Neonatal hematopoietic stem and progenitor cell ontogeny at single cell resolution (ChIP-seq) |
| GSE128762 |
Neonatal hematopoietic stem and progenitor cell ontogeny at single cell resolution |
|
| Relations |
| BioSample |
SAMN15399452 |
| SRA |
SRX8632979 |
