Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
BRD4

Cell type

Cell type Class
Lung
Cell type
NCI-H2171
Primary Tissue
Lung
Site of Extraction
Effusion, Pleural
Tissue Diagnosis
Carcinoma Small Cell

Attributes by original data submitter

Sample

source_name
NCI-H2171 cells
method
ChIP-seq
chip antibody
BRD4 (Bethyl, #A301-985A50)
treatment
None
replicate
rep1
internal id
J2386

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. ChIP-seq libraries were prepared from 10 ng of ChIP material per sample. NEBNext ChIP-Seq Library Prep Master Mix Set for Illumina (NEB #E6240L) and for the quantity measurement KAPA Library Quantification Kit (KapaBiosystems, #KK4824) was used according to the manufacturer’s instructions. 2 nM samples were multiplexed for sequencing.

Sequencing Platform

instrument_model
Illumina HiSeq 1500

hg19

Number of total reads
12850914
Reads aligned (%)
83.4
Duplicates removed (%)
14.0
Number of peaks
715 (qval < 1E-05)

hg38

Number of total reads
12850914
Reads aligned (%)
84.7
Duplicates removed (%)
13.2
Number of peaks
667 (qval < 1E-05)

Base call quality data from DBCLS SRA