Antigen

Antigen Class

TFs and others

Antigen

CTCF

Cell type

Cell type Class

Uterus

Cell type

HeLa

Primary Tissue

Cervix

Tissue Diagnosis

Adenocarcinoma

Sample

source_name

Hela S3 cells

cell line

Hela S3 cells

genotype/variation

stably expressed FLAG tag-CTCF-s

chip antibody

CTCF(Active motif, 61311)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

ChIP was performed as previously described (Huang et al.,2013). Briefly, crosslinked cells was sonicated and incubated with protein A and protein G dynabeads (1:1 mix) and the indicated antibodies. Antibody bound DNA was subsequently washed with low salt wash buffer, high salt wash buffer, LiCl wash buffer once, respectively, and then TE wash buffer twice. ChIPed DNA was reverse-crosslinked and purified for DNA library construction followed by sequencing or ChIP-qPCR analysis. ChIP-Seq and RNA-Seq libraries were prepared for sequencing using standard Illumina protocols

Sequencing Platform

instrument_model

NextSeq 500

hg38

Number of total reads

60420904

Reads aligned (%)

95.9

Duplicates removed (%)

4.3

Number of peaks

65487 (qval < 1E-05)

hg19

Number of total reads

60420904

Reads aligned (%)

95.3

Duplicates removed (%)

4.7

Number of peaks

64293 (qval < 1E-05)