Antigen

Antigen Class

TFs and others

Antigen

CTCF

Cell type

Cell type Class

Breast

Cell type

MCF-7

Primary Tissue

Breast

Site of Extraction

Pleura

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

MCF7L parental

cell types

immortalized breast epithelial cell line

chip antibody

CTCF

agent

untreated

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

RNA extracted using Quick-RNA MiniPrep Kit from ZYMO Research TCC was performed as described (Kalhor et al. 2012). ChIP-seq and RNA-seq libraries were prepared for sequencing using standard Illumina protocols

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

71649426

Reads aligned (%)

96.3

Duplicates removed (%)

14.6

Number of peaks

62812 (qval < 1E-05)

hg19

Number of total reads

71649426

Reads aligned (%)

94.8

Duplicates removed (%)

18.0

Number of peaks

62136 (qval < 1E-05)