Antigen

Antigen Class

TFs and others

Antigen

BRD4

Cell type

Cell type Class

Neural

Cell type

U-87 MG

Primary Tissue

Brain

Tissue Diagnosis

Glioblastoma

Sample

source_name

Glioblastoma

chip antibody

Brd4

antibody catalog number

Bethyl A301-985A

cell type

U87

duration

6h

concentration

500nM

drug

JQ1

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Whole cell extracts were sonicated to solubilize the chromatin. The chromatin extracts containing DNA fragments with an average size of 500 bp were immunoprecipitated using different antibodies. Purified immunoprecipitated DNA were prepared for sequencing according to a modified version of the Solexa Genomic DNA protocol. Fragmented DNA was end repaired and subjected to 18 cycles of LM-PCR using oligos provided by Illumina. Amplified fragments between 150 and 300bp (representing shear fragments between 50 and 200nt in length and ~100bp of primer sequence) were isolated by agarose gel electrophoresis and purified.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

58712187

Reads aligned (%)

96.6

Duplicates removed (%)

45.5

Number of peaks

61005 (qval < 1E-05)

hg19

Number of total reads

58712187

Reads aligned (%)

95.9

Duplicates removed (%)

47.7

Number of peaks

60712 (qval < 1E-05)