Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BRD4

Cell type

Cell type Class
Kidney
Cell type
293
Primary Tissue
Kidney
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
HEK_BRD4_ChIP-seq
cell line
HEK293T
chip antibody
antibody against BRD4 long form

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNA was harvested using Trizol reagent including a DNase digestion step with the RNase-free DNase set from Qiagen. The Chromatin Immunoprecipitation was done according the protocol Dahl et al PMID: 17569620. cDNA library preparation, and sequencing was performed by Illumina’s TrueSeq prep kit following the manufacturer’s instructions with 1 ug of total RNA for the construction of mRNA sequencing libraries. ChIP Seq libraries were prepared according to Illumina's ChIP-Seq Sample Prep Kit instructions.

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

hg19

Number of total reads
27051029
Reads aligned (%)
84.0
Duplicates removed (%)
2.2
Number of peaks
950 (qval < 1E-05)

hg38

Number of total reads
27051029
Reads aligned (%)
85.5
Duplicates removed (%)
1.2
Number of peaks
634 (qval < 1E-05)

Base call quality data from DBCLS SRA