Antigen

Antigen Class

DNase-seq

Antigen

DNase-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.

Sample

ENA first public

2016-02-29

ENA last update

2018-03-09

ENA-CHECKLIST

ERC000011

External Id

SAMEA3631947

INSDC center alias

University of Cambridge

INSDC center name

University of Cambridge

INSDC first public

2016-02-29T17:01:41Z

INSDC last update

2018-03-09T09:21:08Z

INSDC status

public

Submitter Id

E-MTAB-3954:DNase1_HPC7_rep4

broker name

ArrayExpress

cell line

HPC-7

cell type

haematopoietic stem/progenitor cell

common name

house mouse

sample name

E-MTAB-3954:DNase1_HPC7_rep4

sequencing type

Hi-C sequencing

Sequenced DNA Library

library_name

DNase1_HPC7_rep4

library_strategy

DNase-Hypersensitivity

library_source

GENOMIC

library_selection

DNase

library_construction_protocol

HPC-7 cells (Pinto do O et al., 1998) were grown in Stem Cell Factor. Hi-C and CHi-C was performed as described previously (Schoenfelder et al., 2015). Sequencing libraries were prepared according to the manufactures instructions.

Sequencing Platform

instrument_model

Illumina HiSeq 1000

mm10

Number of total reads

123001041

Reads aligned (%)

88.5

Duplicates removed (%)

27.9

Number of peaks

37870 (qval < 1E-05)

mm9

Number of total reads

123001041

Reads aligned (%)

88.4

Duplicates removed (%)

27.9

Number of peaks

37952 (qval < 1E-05)