Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

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
biomaterial_provider
ATCC
biomaterial_type
immortalized cell line
line
HepG2
lab
Broad
lab description
Bernstein - Broad Institute
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell organism
human
cell description
hepatocellular carcinoma
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K4me3
antibody
H3K4me3
antibody targetdescription
Histone H3 (tri methyl K4). Marks promoters that are active or poised to be activated.
antibody vendorname
1)abcam; 2)Millipore
antibody vendorid
ab8580; 07-473
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000084
replicate
1,2
softwareversion
ScriptureVPaperR3

Sequenced DNA Library

library_name
GSM733737: Bernstein_HepG2_H3K4me3
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg38

Number of total reads
21828198
Reads aligned (%)
94.2
Duplicates removed (%)
8.8
Number of peaks
39051 (qval < 1E-05)

hg19

Number of total reads
21828198
Reads aligned (%)
93.7
Duplicates removed (%)
9.1
Number of peaks
38972 (qval < 1E-05)

Base call quality data from DBCLS SRA