Sample information curated by ChIP-Atlas

Antigen

Antigen Class
No description
Antigen
NA

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

ENA first public
2016-02-29
ENA last update
2018-03-09
ENA-CHECKLIST
ERC000011
External Id
SAMEA3631956
INSDC center alias
University of Cambridge
INSDC center name
University of Cambridge
INSDC first public
2016-02-29T17:01:41Z
INSDC last update
2018-03-09T09:21:13Z
INSDC status
public
Submitter Id
E-MTAB-3954:H3K4me3_HPC7
broker name
ArrayExpress
cell line
HPC-7
cell type
haematopoietic stem/progenitor cell
common name
house mouse
sample name
E-MTAB-3954:H3K4me3_HPC7
sequencing type
Hi-C sequencing

Sequenced DNA Library

library_name
H3K4me3_HPC7
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
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
35800795
Reads aligned (%)
96.1
Duplicates removed (%)
53.7
Number of peaks
27558 (qval < 1E-05)

mm9

Number of total reads
35800795
Reads aligned (%)
95.9
Duplicates removed (%)
53.6
Number of peaks
27606 (qval < 1E-05)

Base call quality data from DBCLS SRA