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 Tet-On cells
chip antibody
anti-RAD21 ChIP-grade (Abcam, ab992)
cell line
HeLa Tet-On cells

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
HeLa Tet-On cells were lysed, sonicated. The resulting whole cell extract was centrifuged. The supernatant was incubated with RAD21 or NIPBL antibody. RAD21 or NIPBL bound DNA was isolated and purified. Next-generation sequencing library preparation using KAPA Hyper Prep kit (KAPA Biosystems) using TruSeq adapters (Integrated DNA Technologies). A quality check of the purified libraries was carried out using the Tapestation 4200 (Agilent).

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
43577652
Reads aligned (%)
89.0
Duplicates removed (%)
8.9
Number of peaks
34346 (qval < 1E-05)

hg38

Number of total reads
43577652
Reads aligned (%)
91.0
Duplicates removed (%)
7.5
Number of peaks
34724 (qval < 1E-05)

Base call quality data from DBCLS SRA