Sample information curated by ChIP-Atlas

Antigen

Antigen Class
DNase-seq
Antigen
DNase-Seq

Cell type

Cell type Class
Others
Cell type
Mesenchymal stem cells
NA
NA

Attributes by original data submitter

Sample

source_name
bone_marrow_MSC
biomaterial_provider
Dr. Beverly Torok-Storb at Fred Hutchison Cancer Research Center
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
DnaseSeq
datatype description
DNaseI HS Sequencing
cell
bone_marrow_MSC
cell organism
human
cell description
These cells are primary fibroblastoid cells obtained from human bone marrow of normal donors as described in Roecklein and Torok-Storb, 1995 Blood 85:997-1005.
cell karyotype
normal
cell sex
M
treatment
None
treatment description
No special treatment or protocol applies
labexpid
DS20514
labversion
Hotspot-v5.2,lmax-v1.0,WindowDensity-bin20-win+/-75
replicate
1

Sequenced DNA Library

library_name
GSM1024757: UW_DnaseSeq_bone_marrow_MSCRep1
library_strategy
DNase-Hypersensitivity
library_source
GENOMIC
library_selection
DNase

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg38

Number of total reads
61354255
Reads aligned (%)
82.5
Duplicates removed (%)
36.2
Number of peaks
171027 (qval < 1E-05)

hg19

Number of total reads
61354255
Reads aligned (%)
82.0
Duplicates removed (%)
37.3
Number of peaks
170807 (qval < 1E-05)

Base call quality data from DBCLS SRA