Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BRD4

Cell type

Cell type Class
Bone
Cell type
Osteoblasts
MeSH Description
Bone-forming cells which secrete an EXTRACELLULAR MATRIX. HYDROXYAPATITE crystals are then deposited into the matrix to form bone.

Attributes by original data submitter

Sample

source_name
UND_BRD4
immortalization type
SV40 large T antigen immortalized
cell type
human Fetal Osteoblasts (hFOB)
protocol
undifferentiated
chip antibody
N-terminal BRD4 antibody, Wu et al., 2006

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The ChIP was performed with 20 min crosslinking in 1 % formaldehyde in PBS. Following chromatin shearing , 1-2µg antibody was used for immunoprecipitation overnight. The immunocomplexes were incubated 2 additional hours with protein A sepharose beads and subjected to washes. After reversing the cross-linking, the DNA was isolated by standart phenol-chloroform-isoamyl extraction procedure. ChIP-Seq libraries were prepared with MicroPlex Library Preparation Kit following the manufacturer's instructions.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
20424871
Reads aligned (%)
94.3
Duplicates removed (%)
8.8
Number of peaks
866 (qval < 1E-05)

hg38

Number of total reads
20424871
Reads aligned (%)
95.2
Duplicates removed (%)
7.3
Number of peaks
808 (qval < 1E-05)

Base call quality data from DBCLS SRA