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

treated with E2

time point

24 hours

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

85212133

Reads aligned (%)

98.8

Duplicates removed (%)

14.7

Number of peaks

77040 (qval < 1E-05)

hg19

Number of total reads

85212133

Reads aligned (%)

98.2

Duplicates removed (%)

15.8

Number of peaks

76616 (qval < 1E-05)