Antigen

Antigen Class

TFs and others

Antigen

BRD4

Cell type

Cell type Class

Blood

Cell type

GM12878

Tissue

blood

Lineage

mesoderm

Description

B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

Sample

source_name

Lymphoblast Cell Line

cell type

EBV-infected B Lymphocytes

cell line

GM12878

chip antibody

Bethyl Labs A301-985A lot A301-985A-1

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cells were fixed with 1% formaldehyde. After wash with PBS, the cells were lyzed in ChIP lysis buffer. Lysates were sonicated and cleared by centrifugation. After pre-clear with protein A beads, antibody (Bethyl Labs A301-985A lot A301-985A-1) was incubated with the lysate overnight at 4°C. Protein A was used to capture the protein DNA complex. The eluted protein DNA complexes were reverse crosslinked and DNA was purified by a Qiagen PCR purification column. Libraries were prepared using ChIP-Seq Library Prep Reagent Set for Illumina from NEB. Briefly, DNA was end-repaired. 3' A base was added and ligated to adaptors. After PCR amplification, DNA was purified and analyzed with Illumina HiSeq.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

32179447

Reads aligned (%)

96.6

Duplicates removed (%)

9.7

Number of peaks

1131 (qval < 1E-05)

hg19

Number of total reads

32179447

Reads aligned (%)

95.7

Duplicates removed (%)

10.7

Number of peaks

997 (qval < 1E-05)