Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RELA

Cell type

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

Attributes by original data submitter

Sample

source_name
HeLa
tissue
HeLa cells
genotype/variation
p65 KO, wt p65 rescue
tnf stimulation
0h TNF
chip antibody
p65 (C-20); Santa Cruz sc-372

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For RNA-Seq cells were harvested and total RNA was isolated using the NucleoSpin RNA Kit (Macherey-Nagel). For ChIP-Seq samples were crosslinked using Formaldehyde, Sonicated and chromatin was extracted using the p65 Antibody. DNA was purified NucleoSpin Gel and PCR Clean UP Kit with buffer NTB (Macherey-Nagel). RNA-Seq libraries were prepared from total RNA using the TruSeq Stranded total RNA LT kit (Illumina). ChIP-Seq libraries were prepared from purified ChIP DNA with the Microplex Library Preparation Kit (Diagenode)

Sequencing Platform

instrument_model
Illumina HiSeq 1500

hg19

Number of total reads
31743984
Reads aligned (%)
27.7
Duplicates removed (%)
69.2
Number of peaks
615 (qval < 1E-05)

hg38

Number of total reads
31743984
Reads aligned (%)
29.1
Duplicates removed (%)
67.9
Number of peaks
573 (qval < 1E-05)

Base call quality data from DBCLS SRA