Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

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
HepG2
chip antibody
none
genotype/variation
HRP3 K18A expressing cells

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-Seq samples were crosslinked using Formaldehyde, Sonicated and chromatin was extracted using the GFP or H3K36me3 antibody. DNA was purified using the AMPure XP system. Sequencing libraries were generated using NEBNext® Ultra™ DNA Library Prep Kit for Illumina®(NEB, USA) following manufacturer's recommendations

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
20277499
Reads aligned (%)
95.8
Duplicates removed (%)
16.4
Number of peaks
794 (qval < 1E-05)

hg19

Number of total reads
20277499
Reads aligned (%)
94.9
Duplicates removed (%)
17.5
Number of peaks
512 (qval < 1E-05)

Base call quality data from DBCLS SRA