Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RAD21

Cell type

Cell type Class
Uterus
Cell type
HeLa
Primary Tissue
Cervix
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
Hela S3 cells
cell line
Hela S3 cells
genotype/variation
stably expressed FLAG tag-CTCF-s
antibody
RAD21(abcam,ab992)

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 analysis. ChIP-Seq libraries were prepared for sequencing using standard Illumina protocols.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
32955066
Reads aligned (%)
81.3
Duplicates removed (%)
13.4
Number of peaks
36236 (qval < 1E-05)

hg38

Number of total reads
32955066
Reads aligned (%)
83.1
Duplicates removed (%)
12.0
Number of peaks
35825 (qval < 1E-05)

Base call quality data from DBCLS SRA