Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Blood
Cell type
K-562
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Chronic Myelogenous

Attributes by original data submitter

Sample

source_name
Crosslinked MNase digested chromatin
cell line
K562 cells
antibody
CTCF (Millipore catalog #07-729)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Human K562 cells were crosslinked using formaldehyde for 10 minutes at room temperature. Chromatin was fragmented using MNase and then sonicated to ensure complete extraction of chromatin and associated proteins. Chromatin was immunoprecipitated using an antibody against CTCF. DNA was extracted from the immunoprecipitated chromatin and subjected to Illumina (Solexa) sequencing.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
123439465
Reads aligned (%)
131.1
Duplicates removed (%)
31.9
Number of peaks
14403 (qval < 1E-05)

hg38

Number of total reads
123439465
Reads aligned (%)
132.1
Duplicates removed (%)
31.6
Number of peaks
14563 (qval < 1E-05)

Base call quality data from DBCLS SRA