Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Lung
Cell type
BEAS-2B
Primary Tissue
Lung
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
BEAS-2B cells
treatment
NiCl2
chip antibody
CTCF (Active Motif, 61311)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP, untreated and NiCl2 exposed BEAS-2B cells were crosslinked with 1% formaldehyde for 10 minutes at 25°C and sonicated to obtain 200-500 base pair fragments. ChIP was performed using ChIP grade antibodies against H3K9me2 (Abcam, ab1220), H3K27me3 (Millipore, 07-449), H3K4me3 (Millipore, 07-473), H3K9ac (Abcam, ab4441) and CTCF (Active Motif, 61311). ChIP-Seq libraries were prepared using Illumina TruSeq ChIP sample preparation Kit (IP-202-1024), according to manufacturer’s protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
26518982
Reads aligned (%)
33.1
Duplicates removed (%)
58.4
Number of peaks
18598 (qval < 1E-05)

hg38

Number of total reads
26518982
Reads aligned (%)
34.2
Duplicates removed (%)
57.4
Number of peaks
18575 (qval < 1E-05)

Base call quality data from DBCLS SRA