Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CEBPB

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_C/EBPβ enh-/-
cell line
HepG2
genotype/variation
C/EBPbeta enh-/-
chip antibody
C/EBPB (sc-150, Lot#G1814, Santa Cruz Biotechnology)

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. After recovery of ChIP and input DNA, whole-genome amplification was performed using the WGA4 kit (Sigma-Aldrich) and BpmI-WGA primers. Amplified DNA was digested with BpmI (New England Biolab). After that, 30 ng of the amplified DNA was used with the NEBNext ChIP-seq library prep reagent set (New England Biolab).

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg19

Number of total reads
26517183
Reads aligned (%)
109.6
Duplicates removed (%)
29.3
Number of peaks
1401 (qval < 1E-05)

hg38

Number of total reads
26517183
Reads aligned (%)
111.3
Duplicates removed (%)
28.8
Number of peaks
1853 (qval < 1E-05)

Base call quality data from DBCLS SRA