Antigen

Antigen Class

TFs and others

Antigen

CTCF

Cell type

Cell type Class

Digestive tract

Cell type

COLO 829

Primary Tissue

Skin

Tissue Diagnosis

Melanoma

Sample

source_name

COLO829 cells

chip antibody

CTCF (Millipore 07-729)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Early passage cells were cross-linked in 1% formaldehyde and nuclei were extracted. Nuclei were lysed and DNA was sonicated for 6 hours in a Diagenode Pico Bioruptor (30 seconds on/ 30 seconds off). Chromatin was divided across two samples and incubated with polyclonal rabbit anti-CTCF antibody (Millipore 07-729) and rabbit immunoglobulin G (IgG; Sigma I5006) respectively. DNA was then purified, size selected and sequenced. Library construction was performed as per Illumina protocol Rev A 11257047

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

65282512

Reads aligned (%)

98.8

Duplicates removed (%)

30.1

Number of peaks

44590 (qval < 1E-05)

hg19

Number of total reads

65282512

Reads aligned (%)

98.0

Duplicates removed (%)

31.5

Number of peaks

44202 (qval < 1E-05)