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
SK-N-SH_RA
biomaterial_provider
ATCC
cell
SK-N-SH_RA
cell organism
Human
cell description
neuroblastoma cell line, treatment: differentiated with retinoic acid. (Biedler, et al. Morphology and Growth, Tumorigenicity, and Cytogenetics of Human Neuroblastoma Cells in Continuous Culture. Cancer Research 33, 2643-2652, November 1973.)
cell karyotype
cancer
cell lineage
ectoderm
cell sex
F
antibody
CTCF
antibody description
rabbit polyclonal
antibody target description
CTCF zinc finger transcription factor. A sequence specific DNA binding protein that functions as an insulator, blocking enhancer activity. It has also been suggested to block the spreading of chromatin structure in certain instances.
antibody vendor name
Millipore
replicate
2

Sequenced DNA Library

library_name
GSM749667: Stam_SK-N-SH_RA_CTCF_2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg19

Number of total reads
16764691
Reads aligned (%)
57.4
Duplicates removed (%)
39.5
Number of peaks
44498 (qval < 1E-05)

hg38

Number of total reads
16764691
Reads aligned (%)
58.3
Duplicates removed (%)
38.8
Number of peaks
44703 (qval < 1E-05)

Base call quality data from DBCLS SRA