Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA2

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
FOXA2 ChIP HEPG2
cell line
HEPG2
chip antibody
FoxA2 Antibody

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody. Libraries were generated as previously described (Mikkelsen et al., 2010, Gifford et al., 2013) and Libraries were sequenced on a HiSeq 2500 at 11pmol.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
22952055
Reads aligned (%)
152.7
Duplicates removed (%)
13.3
Number of peaks
29357 (qval < 1E-05)

hg38

Number of total reads
22952055
Reads aligned (%)
155.6
Duplicates removed (%)
13.0
Number of peaks
29788 (qval < 1E-05)

Base call quality data from DBCLS SRA