Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Neural
Cell type
SK-N-SH
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
Neuroblastoma
cell line
neuroblastoma cell line SK-N-SH
chip antibody
CTCF (Millipore, catalog# 07-729)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and CTCF,Rad21,RNAPII, histone-DNA complexes were isolated with antibody.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
25820248
Reads aligned (%)
68.4
Duplicates removed (%)
30.1
Number of peaks
29012 (qval < 1E-05)

hg38

Number of total reads
25820248
Reads aligned (%)
70.3
Duplicates removed (%)
28.8
Number of peaks
29089 (qval < 1E-05)

Base call quality data from DBCLS SRA