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Sample GSM3684526 Query DataSets for GSM3684526
Status Public on Aug 20, 2020
Title JM106: Adult HSC H3K4me1-3 ChIP-seq
Sample type SRA
 
Source name Hematopoietic Stem Cell
Organism Mus musculus
Characteristics tissue: Hematopoietic Stem Cell
histone_mark: H3K4me1
age: 8 week old
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 Adult_HSC_H3K4me1
processed data in series file Adult_HSC_H3K4me1.pooled.fc.signal.bigwig
processed data in series file Adult_HSC_H3K4me1.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 Mar 24, 2019
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 SAMN11245174
SRA SRX5565535

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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