Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NFIC

Cell type

Cell type Class
Liver
Cell type
Hep G2
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

source_name
HepG2 Cell line (ATCC® HB-8065™)
cell line
HepG2
antibody
NFIC

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The chromatin was decross-linked at 65 oC over night in TE buffer with 1% SDS, 500 mM NaCl, 20 ug of Proteinase K. DNA was extracted and purified with Qiagen MinElute kit. After reverse crosslinking, ChIP and input DNA fragments were used for library construction with NEBNext Ultra Ligation Module (E7445, NEB)

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg19

Number of total reads
19756370
Reads aligned (%)
74.8
Duplicates removed (%)
14.1
Number of peaks
13406 (qval < 1E-05)

hg38

Number of total reads
19756370
Reads aligned (%)
75.5
Duplicates removed (%)
13.8
Number of peaks
13383 (qval < 1E-05)

Base call quality data from DBCLS SRA