Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Blood
Cell type
Hematopoietic Stem Cells
MeSH Description
Progenitor cells from which all blood cells derived. They are found primarily in the bone marrow and also in small numbers in the peripheral blood.

Attributes by original data submitter

Sample

source_name
Hematopoietic stem and progenitor cells
strain
C57BL/6
tissue
Bone marrow
cell type
Hematopoietic stem and progenitor cells
genotype
Hira conditional KO

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Genomic DNA was extracted using standard methods. ATAC-seq was performed as described (Buenrostro et al., 2015). In brief, transposed DNA fragments were amplified by PCR for 11 cycles after the transposition reaction and purification. The library quality was check by gel electrophoresis. Libraries were sequenced using paired-end sequencing on an Illumina Next seq500.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
36382461
Reads aligned (%)
97.5
Duplicates removed (%)
42.7
Number of peaks
34719 (qval < 1E-05)

mm9

Number of total reads
36382461
Reads aligned (%)
97.5
Duplicates removed (%)
42.8
Number of peaks
34654 (qval < 1E-05)

Base call quality data from DBCLS SRA