Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

source_name
embryonic stem cells
cell type
undifferentiated embryonic stem cells
antibody
anti-CTCF polyclonal antibody (ab070303, Abcam)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq: The sequencing library preparation including barcoding was conducted using a Mondrian SP (NuGEN Technologies Inc.) and the Ovation SP Ultralow Library system (NuGEN). The Illumina libraries were sequenced with the TruSeq SBS kit v3 (Illumina) in 51-cycle Single-End mode of HiSeq 2500 (Illumina).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
32775044
Reads aligned (%)
32.2
Duplicates removed (%)
65.7
Number of peaks
12744 (qval < 1E-05)

hg38

Number of total reads
32775044
Reads aligned (%)
33.4
Duplicates removed (%)
64.6
Number of peaks
12528 (qval < 1E-05)

Base call quality data from DBCLS SRA